Mercurial > repos > galaxyp > maxquant

annotate test-data/07/mqpar.xml @ 15:41a49d4b2bc3 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 80eb79844e82da22ce44a2ee9c9f202bed0b94d1
author galaxyp
date Fri, 22 Jul 2022 07:09:30 +0000
parents 057bf124c80e
children ef25c9c04aee
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
1 <?xml version="1.0" ?>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
2 <MaxQuantParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
3 <fastaFiles>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
4 <FastaFileInfo>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
5 <fastaFilePath>/tmp/tmpojxmxo_4/files/2/d/f/dataset_2df03e43-042c-483e-9a8a-ad29add25dbd.dat</fastaFilePath>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
6 <identifierParseRule>&gt;([^\s]*)</identifierParseRule>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
7 <descriptionParseRule>&gt;(.*)</descriptionParseRule>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
8 <taxonomyParseRule/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
9 <variationParseRule/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
10 <modificationParseRule/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
11 <taxonomyId/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
12 </FastaFileInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
13 </fastaFiles>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
14 <fastaFilesProteogenomics>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
15 </fastaFilesProteogenomics>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
16 <fastaFilesFirstSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
17 </fastaFilesFirstSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
18 <fixedSearchFolder/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
19 <andromedaCacheSize>350000</andromedaCacheSize>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
20 <advancedRatios>True</advancedRatios>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
21 <pvalThres>0.005</pvalThres>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
22 <rtShift>False</rtShift>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
23 <separateLfq>False</separateLfq>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
24 <lfqStabilizeLargeRatios>True</lfqStabilizeLargeRatios>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
25 <lfqRequireMsms>True</lfqRequireMsms>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
26 <decoyMode>revert</decoyMode>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
27 <boxCarMode>all</boxCarMode>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
28 <includeContaminants>True</includeContaminants>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
29 <maxPeptideMass>4600</maxPeptideMass>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
30 <epsilonMutationScore>True</epsilonMutationScore>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
31 <mutatedPeptidesSeparately>True</mutatedPeptidesSeparately>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
32 <proteogenomicPeptidesSeparately>True</proteogenomicPeptidesSeparately>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
33 <minDeltaScoreUnmodifiedPeptides>0</minDeltaScoreUnmodifiedPeptides>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
34 <minDeltaScoreModifiedPeptides>6</minDeltaScoreModifiedPeptides>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
35 <minScoreUnmodifiedPeptides>0</minScoreUnmodifiedPeptides>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
36 <minScoreModifiedPeptides>40</minScoreModifiedPeptides>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
37 <secondPeptide>True</secondPeptide>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
38 <matchBetweenRuns>False</matchBetweenRuns>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
39 <matchUnidentifiedFeatures>False</matchUnidentifiedFeatures>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
40 <matchBetweenRunsFdr>False</matchBetweenRunsFdr>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
41 <dependentPeptides>False</dependentPeptides>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
42 <dependentPeptideFdr>0</dependentPeptideFdr>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
43 <dependentPeptideMassBin>0</dependentPeptideMassBin>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
44 <dependentPeptidesBetweenRuns>False</dependentPeptidesBetweenRuns>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
45 <dependentPeptidesWithinExperiment>False</dependentPeptidesWithinExperiment>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
46 <dependentPeptidesWithinParameterGroup>False</dependentPeptidesWithinParameterGroup>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
47 <dependentPeptidesRestrictFractions>False</dependentPeptidesRestrictFractions>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
48 <dependentPeptidesFractionDifference>0</dependentPeptidesFractionDifference>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
49 <ibaq>False</ibaq>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
50 <top3>False</top3>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
51 <independentEnzymes>False</independentEnzymes>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
52 <useDeltaScore>False</useDeltaScore>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
53 <splitProteinGroupsByTaxonomy>False</splitProteinGroupsByTaxonomy>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
54 <taxonomyLevel>Species</taxonomyLevel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
55 <avalon>False</avalon>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
56 <nModColumns>3</nModColumns>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
57 <ibaqLogFit>False</ibaqLogFit>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
58 <razorProteinFdr>True</razorProteinFdr>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
59 <deNovoSequencing>False</deNovoSequencing>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
60 <deNovoVarMods>True</deNovoVarMods>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
61 <massDifferenceSearch>False</massDifferenceSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
62 <isotopeCalc>False</isotopeCalc>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
63 <writePeptidesForSpectrumFile/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
64 <intensityPredictionsFile>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
65 </intensityPredictionsFile>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
66 <minPepLen>7</minPepLen>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
67 <psmFdrCrosslink>0.01</psmFdrCrosslink>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
68 <peptideFdr>0.01</peptideFdr>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
69 <proteinFdr>0.01</proteinFdr>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
70 <siteFdr>0.01</siteFdr>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
71 <minPeptideLengthForUnspecificSearch>8</minPeptideLengthForUnspecificSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
72 <maxPeptideLengthForUnspecificSearch>25</maxPeptideLengthForUnspecificSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
73 <useNormRatiosForOccupancy>True</useNormRatiosForOccupancy>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
74 <minPeptides>1</minPeptides>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
75 <minRazorPeptides>1</minRazorPeptides>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
76 <minUniquePeptides>0</minUniquePeptides>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
77 <useCounterparts>True</useCounterparts>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
78 <advancedSiteIntensities>True</advancedSiteIntensities>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
79 <customProteinQuantification>False</customProteinQuantification>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
80 <customProteinQuantificationFile/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
81 <minRatioCount>2</minRatioCount>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
82 <restrictProteinQuantification>True</restrictProteinQuantification>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
83 <restrictMods>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
84 <string>Oxidation (M)</string>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
85 <string>Acetyl (Protein N-term)</string>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
86 </restrictMods>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
87 <matchingTimeWindow>0</matchingTimeWindow>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
88 <matchingIonMobilityWindow>0</matchingIonMobilityWindow>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
89 <alignmentTimeWindow>0</alignmentTimeWindow>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
90 <alignmentIonMobilityWindow>0</alignmentIonMobilityWindow>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
91 <numberOfCandidatesMsms>15</numberOfCandidatesMsms>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
92 <compositionPrediction>0</compositionPrediction>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
93 <quantMode>1</quantMode>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
94 <massDifferenceMods>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
95 </massDifferenceMods>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
96 <mainSearchMaxCombinations>200</mainSearchMaxCombinations>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
97 <writeMsScansTable>False</writeMsScansTable>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
98 <writeMsmsScansTable>True</writeMsmsScansTable>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
99 <writePasefMsmsScansTable>True</writePasefMsmsScansTable>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
100 <writeAccumulatedPasefMsmsScansTable>False</writeAccumulatedPasefMsmsScansTable>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
101 <writeMs3ScansTable>True</writeMs3ScansTable>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
102 <writeAllPeptidesTable>True</writeAllPeptidesTable>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
103 <writeMzRangeTable>True</writeMzRangeTable>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
104 <writeDiaFragmentTable>False</writeDiaFragmentTable>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
105 <writeMzTab>False</writeMzTab>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
106 <disableMd5>False</disableMd5>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
107 <cacheBinInds>True</cacheBinInds>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
108 <etdIncludeB>False</etdIncludeB>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
109 <ms2PrecursorShift>0</ms2PrecursorShift>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
110 <complementaryIonPpm>20</complementaryIonPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
111 <variationParseRule/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
112 <variationMode>none</variationMode>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
113 <useSeriesReporters>False</useSeriesReporters>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
114 <name>templateSession</name>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
115 <maxQuantVersion>1.6.17.0</maxQuantVersion>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
116 <pluginFolder/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
117 <numThreads>1</numThreads>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
118 <batchSize>1</batchSize>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
119 <emailAddress/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
120 <smtpHost/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
121 <emailFromAddress/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
122 <fixedCombinedFolder/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
123 <fullMinMz>-1.79769313486232E+308</fullMinMz>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
124 <fullMaxMz>1.79769313486232E+308</fullMaxMz>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
125 <sendEmail>False</sendEmail>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
126 <ionCountIntensities>False</ionCountIntensities>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
127 <verboseColumnHeaders>False</verboseColumnHeaders>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
128 <calcPeakProperties>False</calcPeakProperties>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
129 <showCentroidMassDifferences>False</showCentroidMassDifferences>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
130 <showIsotopeMassDifferences>False</showIsotopeMassDifferences>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
131 <useDotNetCore>True</useDotNetCore>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
132 <profilePerformance>False</profilePerformance>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
133 <filePaths>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
134 <string>/tmp/tmpojxmxo_4/job_working_directory/000/6/working/tmt_data.mzXML</string>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
135 </filePaths>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
136 <experiments>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
137 <string>tmt_data.mzXML</string>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
138 </experiments>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
139 <fractions>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
140 <short>32767</short>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
141 </fractions>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
142 <ptms>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
143 <boolean>False</boolean>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
144 </ptms>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
145 <paramGroupIndices>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
146 <int>0</int>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
147 </paramGroupIndices>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
148 <referenceChannel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
149 <string/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
150 </referenceChannel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
151 <intensPred>False</intensPred>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
152 <intensPredModelReTrain>False</intensPredModelReTrain>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
153 <lfqTopNPeptides>0</lfqTopNPeptides>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
154 <parameterGroups>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
155 <parameterGroup>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
156 <msInstrument>0</msInstrument>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
157 <maxCharge>7</maxCharge>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
158 <minPeakLen>2</minPeakLen>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
159 <diaMinPeakLen>1</diaMinPeakLen>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
160 <useMs1Centroids>False</useMs1Centroids>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
161 <useMs2Centroids>False</useMs2Centroids>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
162 <cutPeaks>True</cutPeaks>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
163 <gapScans>1</gapScans>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
164 <minTime>NaN</minTime>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
165 <maxTime>NaN</maxTime>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
166 <matchType>MatchFromAndTo</matchType>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
167 <intensityDetermination>0</intensityDetermination>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
168 <centroidMatchTol>8</centroidMatchTol>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
169 <centroidMatchTolInPpm>True</centroidMatchTolInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
170 <centroidHalfWidth>35</centroidHalfWidth>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
171 <centroidHalfWidthInPpm>True</centroidHalfWidthInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
172 <valleyFactor>1.4</valleyFactor>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
173 <isotopeValleyFactor>1.2</isotopeValleyFactor>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
174 <advancedPeakSplitting>False</advancedPeakSplitting>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
175 <intensityThresholdMs1>0</intensityThresholdMs1>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
176 <intensityThresholdMs2>0</intensityThresholdMs2>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
177 <labelMods>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
178 <string/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
179 </labelMods>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
180 <lcmsRunType>Reporter ion MS2</lcmsRunType>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
181 <reQuantify>False</reQuantify>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
182 <lfqMode>0</lfqMode>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
183 <lfqNormClusterSize>80</lfqNormClusterSize>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
184 <lfqMinEdgesPerNode>3</lfqMinEdgesPerNode>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
185 <lfqAvEdgesPerNode>6</lfqAvEdgesPerNode>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
186 <lfqMaxFeatures>100000</lfqMaxFeatures>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
187 <neucodeMaxPpm>0</neucodeMaxPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
188 <neucodeResolution>0</neucodeResolution>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
189 <neucodeResolutionInMda>False</neucodeResolutionInMda>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
190 <neucodeInSilicoLowRes>False</neucodeInSilicoLowRes>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
191 <fastLfq>True</fastLfq>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
192 <lfqRestrictFeatures>False</lfqRestrictFeatures>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
193 <lfqMinRatioCount>2</lfqMinRatioCount>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
194 <maxLabeledAa>0</maxLabeledAa>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
195 <maxNmods>5</maxNmods>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
196 <maxMissedCleavages>2</maxMissedCleavages>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
197 <multiplicity>1</multiplicity>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
198 <enzymeMode>0</enzymeMode>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
199 <complementaryReporterType>0</complementaryReporterType>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
200 <reporterNormalization>0</reporterNormalization>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
201 <neucodeIntensityMode>0</neucodeIntensityMode>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
202 <fixedModifications/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
203 <enzymes>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
204 <string>Trypsin/P</string>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
205 </enzymes>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
206 <enzymesFirstSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
207 </enzymesFirstSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
208 <enzymeModeFirstSearch>0</enzymeModeFirstSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
209 <useEnzymeFirstSearch>False</useEnzymeFirstSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
210 <useVariableModificationsFirstSearch>False</useVariableModificationsFirstSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
211 <variableModifications>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
212 <string>Oxidation (M)</string>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
213 </variableModifications>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
214 <useMultiModification>False</useMultiModification>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
215 <multiModifications>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
216 </multiModifications>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
217 <isobaricLabels>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
218 <IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
219 <internalLabel>TMT10plex-Lys126C</internalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
220 <terminalLabel>TMT10plex-Nter126C</terminalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
221 <correctionFactorM2>0</correctionFactorM2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
222 <correctionFactorM1>0</correctionFactorM1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
223 <correctionFactorP1>0</correctionFactorP1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
224 <correctionFactorP2>0</correctionFactorP2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
225 <tmtLike>True</tmtLike>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
226 </IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
227 <IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
228 <internalLabel>TMT10plex-Lys127N</internalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
229 <terminalLabel>TMT10plex-Nter127N</terminalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
230 <correctionFactorM2>0</correctionFactorM2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
231 <correctionFactorM1>0</correctionFactorM1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
232 <correctionFactorP1>0</correctionFactorP1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
233 <correctionFactorP2>0</correctionFactorP2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
234 <tmtLike>True</tmtLike>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
235 </IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
236 <IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
237 <internalLabel>TMT10plex-Lys127C</internalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
238 <terminalLabel>TMT10plex-Nter127C</terminalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
239 <correctionFactorM2>0</correctionFactorM2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
240 <correctionFactorM1>0</correctionFactorM1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
241 <correctionFactorP1>0</correctionFactorP1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
242 <correctionFactorP2>0</correctionFactorP2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
243 <tmtLike>True</tmtLike>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
244 </IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
245 <IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
246 <internalLabel>TMT10plex-Lys128N</internalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
247 <terminalLabel>TMT10plex-Nter128N</terminalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
248 <correctionFactorM2>0</correctionFactorM2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
249 <correctionFactorM1>0</correctionFactorM1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
250 <correctionFactorP1>0</correctionFactorP1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
251 <correctionFactorP2>0</correctionFactorP2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
252 <tmtLike>True</tmtLike>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
253 </IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
254 <IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
255 <internalLabel>TMT10plex-Lys128C</internalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
256 <terminalLabel>TMT10plex-Nter128C</terminalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
257 <correctionFactorM2>0</correctionFactorM2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
258 <correctionFactorM1>0</correctionFactorM1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
259 <correctionFactorP1>0</correctionFactorP1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
260 <correctionFactorP2>0</correctionFactorP2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
261 <tmtLike>True</tmtLike>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
262 </IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
263 <IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
264 <internalLabel>TMT10plex-Lys129N</internalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
265 <terminalLabel>TMT10plex-Nter129N</terminalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
266 <correctionFactorM2>0</correctionFactorM2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
267 <correctionFactorM1>0</correctionFactorM1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
268 <correctionFactorP1>0</correctionFactorP1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
269 <correctionFactorP2>0</correctionFactorP2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
270 <tmtLike>True</tmtLike>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
271 </IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
272 <IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
273 <internalLabel>TMT10plex-Lys129C</internalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
274 <terminalLabel>TMT10plex-Nter129C</terminalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
275 <correctionFactorM2>0</correctionFactorM2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
276 <correctionFactorM1>0</correctionFactorM1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
277 <correctionFactorP1>0</correctionFactorP1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
278 <correctionFactorP2>0</correctionFactorP2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
279 <tmtLike>True</tmtLike>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
280 </IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
281 <IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
282 <internalLabel>TMT10plex-Lys130N</internalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
283 <terminalLabel>TMT10plex-Nter130N</terminalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
284 <correctionFactorM2>0</correctionFactorM2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
285 <correctionFactorM1>0</correctionFactorM1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
286 <correctionFactorP1>0</correctionFactorP1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
287 <correctionFactorP2>0</correctionFactorP2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
288 <tmtLike>True</tmtLike>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
289 </IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
290 <IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
291 <internalLabel>TMT10plex-Lys130C</internalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
292 <terminalLabel>TMT10plex-Nter130C</terminalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
293 <correctionFactorM2>0</correctionFactorM2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
294 <correctionFactorM1>0</correctionFactorM1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
295 <correctionFactorP1>0</correctionFactorP1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
296 <correctionFactorP2>0</correctionFactorP2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
297 <tmtLike>True</tmtLike>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
298 </IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
299 <IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
300 <internalLabel>TMT10plex-Lys131N</internalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
301 <terminalLabel>TMT10plex-Nter131N</terminalLabel>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
302 <correctionFactorM2>0</correctionFactorM2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
303 <correctionFactorM1>0</correctionFactorM1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
304 <correctionFactorP1>0</correctionFactorP1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
305 <correctionFactorP2>0</correctionFactorP2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
306 <tmtLike>True</tmtLike>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
307 </IsobaricLabelInfo>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
308 </isobaricLabels>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
309 <neucodeLabels>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
310 </neucodeLabels>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
311 <variableModificationsFirstSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
312 </variableModificationsFirstSearch>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
313 <hasAdditionalVariableModifications>False</hasAdditionalVariableModifications>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
314 <additionalVariableModifications>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
315 </additionalVariableModifications>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
316 <additionalVariableModificationProteins>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
317 </additionalVariableModificationProteins>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
318 <doMassFiltering>True</doMassFiltering>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
319 <firstSearchTol>20</firstSearchTol>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
320 <mainSearchTol>4.5</mainSearchTol>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
321 <searchTolInPpm>True</searchTolInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
322 <isotopeMatchTol>2</isotopeMatchTol>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
323 <isotopeMatchTolInPpm>True</isotopeMatchTolInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
324 <isotopeTimeCorrelation>0.6</isotopeTimeCorrelation>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
325 <theorIsotopeCorrelation>0.6</theorIsotopeCorrelation>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
326 <checkMassDeficit>True</checkMassDeficit>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
327 <recalibrationInPpm>True</recalibrationInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
328 <intensityDependentCalibration>False</intensityDependentCalibration>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
329 <minScoreForCalibration>70</minScoreForCalibration>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
330 <matchLibraryFile>False</matchLibraryFile>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
331 <libraryFile/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
332 <matchLibraryMassTolPpm>0</matchLibraryMassTolPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
333 <matchLibraryTimeTolMin>0</matchLibraryTimeTolMin>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
334 <matchLabelTimeTolMin>0</matchLabelTimeTolMin>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
335 <reporterMassTolerance>0.003</reporterMassTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
336 <reporterPif>0</reporterPif>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
337 <filterPif>False</filterPif>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
338 <reporterFraction>0</reporterFraction>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
339 <reporterBasePeakRatio>0</reporterBasePeakRatio>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
340 <timsHalfWidth>0</timsHalfWidth>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
341 <timsStep>0</timsStep>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
342 <timsResolution>0</timsResolution>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
343 <timsMinMsmsIntensity>0</timsMinMsmsIntensity>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
344 <timsRemovePrecursor>True</timsRemovePrecursor>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
345 <timsIsobaricLabels>False</timsIsobaricLabels>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
346 <timsCollapseMsms>True</timsCollapseMsms>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
347 <crossLinkingType>0</crossLinkingType>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
348 <crossLinker/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
349 <minMatchXl>0</minMatchXl>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
350 <minPairedPepLenXl>6</minPairedPepLenXl>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
351 <crosslinkOnlyIntraProtein>False</crosslinkOnlyIntraProtein>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
352 <crosslinkMaxMonoUnsaturated>0</crosslinkMaxMonoUnsaturated>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
353 <crosslinkMaxMonoSaturated>0</crosslinkMaxMonoSaturated>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
354 <crosslinkMaxDiUnsaturated>0</crosslinkMaxDiUnsaturated>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
355 <crosslinkMaxDiSaturated>0</crosslinkMaxDiSaturated>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
356 <crosslinkModifications>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
357 </crosslinkModifications>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
358 <crosslinkFastaFiles>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
359 </crosslinkFastaFiles>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
360 <crosslinkSites>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
361 </crosslinkSites>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
362 <crosslinkNetworkFiles>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
363 </crosslinkNetworkFiles>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
364 <crosslinkMode/>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
365 <peakRefinement>False</peakRefinement>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
366 <isobaricSumOverWindow>True</isobaricSumOverWindow>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
367 <isobaricWeightExponent>0.75</isobaricWeightExponent>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
368 <diaLibraryType>0</diaLibraryType>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
369 <diaLibraryPaths>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
370 </diaLibraryPaths>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
371 <diaPeptidePaths>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
372 </diaPeptidePaths>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
373 <diaEvidencePaths>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
374 </diaEvidencePaths>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
375 <diaMsmsPaths>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
376 </diaMsmsPaths>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
377 <diaInitialPrecMassTolPpm>20</diaInitialPrecMassTolPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
378 <diaInitialFragMassTolPpm>20</diaInitialFragMassTolPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
379 <diaCorrThresholdFeatureClustering>0.85</diaCorrThresholdFeatureClustering>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
380 <diaPrecTolPpmFeatureClustering>2</diaPrecTolPpmFeatureClustering>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
381 <diaFragTolPpmFeatureClustering>2</diaFragTolPpmFeatureClustering>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
382 <diaScoreN>7</diaScoreN>
11
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
383 <diaMinScore>1.99</diaMinScore>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
384 <diaXgBoostBaseScore>0.4</diaXgBoostBaseScore>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
385 <diaXgBoostSubSample>0.9</diaXgBoostSubSample>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
386 <centroidPosition>0</centroidPosition>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
387 <diaQuantMethod>7</diaQuantMethod>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
388 <diaFeatureQuantMethod>2</diaFeatureQuantMethod>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
389 <lfqNormType>1</lfqNormType>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
390 <diaTopNForQuant>10</diaTopNForQuant>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
391 <diaMinMsmsIntensityForQuant>0</diaMinMsmsIntensityForQuant>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
392 <diaTopMsmsIntensityQuantileForQuant>0.85</diaTopMsmsIntensityQuantileForQuant>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
393 <diaPrecursorFilterType>0</diaPrecursorFilterType>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
394 <diaMinFragmentOverlapScore>1</diaMinFragmentOverlapScore>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
395 <diaMinPrecursorScore>0.5</diaMinPrecursorScore>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
396 <diaMinProfileCorrelation>0</diaMinProfileCorrelation>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
397 <diaXgBoostMinChildWeight>9</diaXgBoostMinChildWeight>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
398 <diaXgBoostMaximumTreeDepth>12</diaXgBoostMaximumTreeDepth>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
399 <diaXgBoostEstimators>580</diaXgBoostEstimators>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
400 <diaXgBoostGamma>0.9</diaXgBoostGamma>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
401 <diaXgBoostMaxDeltaStep>3</diaXgBoostMaxDeltaStep>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
402 <diaGlobalMl>True</diaGlobalMl>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
403 <diaAdaptiveMassAccuracy>False</diaAdaptiveMassAccuracy>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
404 <diaMassWindowFactor>3.3</diaMassWindowFactor>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
405 <diaRtPrediction>False</diaRtPrediction>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
406 <diaRtPredictionSecondRound>False</diaRtPredictionSecondRound>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
407 <diaNoMl>False</diaNoMl>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
408 <diaPermuteRt>False</diaPermuteRt>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
409 <diaPermuteCcs>False</diaPermuteCcs>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
410 <diaBackgroundSubtraction>False</diaBackgroundSubtraction>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
411 <diaBackgroundSubtractionQuantile>0.5</diaBackgroundSubtractionQuantile>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
412 <diaBackgroundSubtractionFactor>4</diaBackgroundSubtractionFactor>
057bf124c80e "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
galaxyp
parents: 10
diff changeset
413 <diaLfqWeightedMedian>False</diaLfqWeightedMedian>
10
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
414 </parameterGroup>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
415 </parameterGroups>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
416 <msmsParamsArray>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
417 <msmsParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
418 <Name>FTMS</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
419 <MatchTolerance>20</MatchTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
420 <MatchToleranceInPpm>True</MatchToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
421 <DeisotopeTolerance>7</DeisotopeTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
422 <DeisotopeToleranceInPpm>True</DeisotopeToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
423 <DeNovoTolerance>10</DeNovoTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
424 <DeNovoToleranceInPpm>True</DeNovoToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
425 <Deisotope>True</Deisotope>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
426 <Topx>12</Topx>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
427 <TopxInterval>100</TopxInterval>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
428 <HigherCharges>True</HigherCharges>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
429 <IncludeWater>True</IncludeWater>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
430 <IncludeAmmonia>True</IncludeAmmonia>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
431 <DependentLosses>True</DependentLosses>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
432 <Recalibration>False</Recalibration>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
433 </msmsParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
434 <msmsParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
435 <Name>ITMS</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
436 <MatchTolerance>0.5</MatchTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
437 <MatchToleranceInPpm>False</MatchToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
438 <DeisotopeTolerance>0.15</DeisotopeTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
439 <DeisotopeToleranceInPpm>False</DeisotopeToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
440 <DeNovoTolerance>0.25</DeNovoTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
441 <DeNovoToleranceInPpm>False</DeNovoToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
442 <Deisotope>False</Deisotope>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
443 <Topx>8</Topx>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
444 <TopxInterval>100</TopxInterval>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
445 <HigherCharges>True</HigherCharges>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
446 <IncludeWater>True</IncludeWater>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
447 <IncludeAmmonia>True</IncludeAmmonia>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
448 <DependentLosses>True</DependentLosses>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
449 <Recalibration>False</Recalibration>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
450 </msmsParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
451 <msmsParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
452 <Name>TOF</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
453 <MatchTolerance>40</MatchTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
454 <MatchToleranceInPpm>True</MatchToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
455 <DeisotopeTolerance>0.01</DeisotopeTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
456 <DeisotopeToleranceInPpm>False</DeisotopeToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
457 <DeNovoTolerance>0.02</DeNovoTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
458 <DeNovoToleranceInPpm>False</DeNovoToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
459 <Deisotope>True</Deisotope>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
460 <Topx>10</Topx>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
461 <TopxInterval>100</TopxInterval>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
462 <HigherCharges>True</HigherCharges>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
463 <IncludeWater>True</IncludeWater>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
464 <IncludeAmmonia>True</IncludeAmmonia>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
465 <DependentLosses>True</DependentLosses>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
466 <Recalibration>False</Recalibration>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
467 </msmsParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
468 <msmsParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
469 <Name>Unknown</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
470 <MatchTolerance>20</MatchTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
471 <MatchToleranceInPpm>True</MatchToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
472 <DeisotopeTolerance>7</DeisotopeTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
473 <DeisotopeToleranceInPpm>True</DeisotopeToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
474 <DeNovoTolerance>10</DeNovoTolerance>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
475 <DeNovoToleranceInPpm>True</DeNovoToleranceInPpm>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
476 <Deisotope>True</Deisotope>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
477 <Topx>12</Topx>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
478 <TopxInterval>100</TopxInterval>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
479 <HigherCharges>True</HigherCharges>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
480 <IncludeWater>True</IncludeWater>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
481 <IncludeAmmonia>True</IncludeAmmonia>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
482 <DependentLosses>True</DependentLosses>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
483 <Recalibration>False</Recalibration>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
484 </msmsParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
485 </msmsParamsArray>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
486 <fragmentationParamsArray>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
487 <fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
488 <Name>CID</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
489 <Connected>False</Connected>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
490 <ConnectedScore0>1</ConnectedScore0>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
491 <ConnectedScore1>1</ConnectedScore1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
492 <ConnectedScore2>1</ConnectedScore2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
493 <InternalFragments>False</InternalFragments>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
494 <InternalFragmentWeight>1</InternalFragmentWeight>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
495 <InternalFragmentAas>KRH</InternalFragmentAas>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
496 </fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
497 <fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
498 <Name>HCD</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
499 <Connected>False</Connected>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
500 <ConnectedScore0>1</ConnectedScore0>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
501 <ConnectedScore1>1</ConnectedScore1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
502 <ConnectedScore2>1</ConnectedScore2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
503 <InternalFragments>False</InternalFragments>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
504 <InternalFragmentWeight>1</InternalFragmentWeight>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
505 <InternalFragmentAas>KRH</InternalFragmentAas>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
506 </fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
507 <fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
508 <Name>ETD</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
509 <Connected>False</Connected>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
510 <ConnectedScore0>1</ConnectedScore0>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
511 <ConnectedScore1>1</ConnectedScore1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
512 <ConnectedScore2>1</ConnectedScore2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
513 <InternalFragments>False</InternalFragments>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
514 <InternalFragmentWeight>1</InternalFragmentWeight>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
515 <InternalFragmentAas>KRH</InternalFragmentAas>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
516 </fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
517 <fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
518 <Name>PQD</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
519 <Connected>False</Connected>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
520 <ConnectedScore0>1</ConnectedScore0>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
521 <ConnectedScore1>1</ConnectedScore1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
522 <ConnectedScore2>1</ConnectedScore2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
523 <InternalFragments>False</InternalFragments>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
524 <InternalFragmentWeight>1</InternalFragmentWeight>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
525 <InternalFragmentAas>KRH</InternalFragmentAas>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
526 </fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
527 <fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
528 <Name>ETHCD</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
529 <Connected>False</Connected>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
530 <ConnectedScore0>1</ConnectedScore0>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
531 <ConnectedScore1>1</ConnectedScore1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
532 <ConnectedScore2>1</ConnectedScore2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
533 <InternalFragments>False</InternalFragments>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
534 <InternalFragmentWeight>1</InternalFragmentWeight>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
535 <InternalFragmentAas>KRH</InternalFragmentAas>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
536 </fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
537 <fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
538 <Name>ETCID</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
539 <Connected>False</Connected>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
540 <ConnectedScore0>1</ConnectedScore0>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
541 <ConnectedScore1>1</ConnectedScore1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
542 <ConnectedScore2>1</ConnectedScore2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
543 <InternalFragments>False</InternalFragments>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
544 <InternalFragmentWeight>1</InternalFragmentWeight>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
545 <InternalFragmentAas>KRH</InternalFragmentAas>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
546 </fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
547 <fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
548 <Name>UVPD</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
549 <Connected>False</Connected>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
550 <ConnectedScore0>1</ConnectedScore0>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
551 <ConnectedScore1>1</ConnectedScore1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
552 <ConnectedScore2>1</ConnectedScore2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
553 <InternalFragments>False</InternalFragments>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
554 <InternalFragmentWeight>1</InternalFragmentWeight>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
555 <InternalFragmentAas>KRH</InternalFragmentAas>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
556 </fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
557 <fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
558 <Name>Unknown</Name>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
559 <Connected>False</Connected>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
560 <ConnectedScore0>1</ConnectedScore0>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
561 <ConnectedScore1>1</ConnectedScore1>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
562 <ConnectedScore2>1</ConnectedScore2>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
563 <InternalFragments>False</InternalFragments>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
564 <InternalFragmentWeight>1</InternalFragmentWeight>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
565 <InternalFragmentAas>KRH</InternalFragmentAas>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
566 </fragmentationParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
567 </fragmentationParamsArray>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
568 </MaxQuantParams>
68d8dcdbddb1 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
galaxyp
parents:
diff changeset
569