Mercurial > repos > devteam > picard

annotate test-data/picard_CollectGcBiasMetrics_test1.tab @ 28:c943f4a04af0 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 285fab1660daa944d6833ae1e059b30cb1e88309
author iuc
date Mon, 25 Sep 2023 08:31:14 +0000
parents 486d7500da69
children
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52fdfc45590a planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 00a7926c285bc4a339bd7deebf40b28f39c7d947-dirty
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1 ## htsjdk.samtools.metrics.StringHeader
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486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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2 # CollectGcBiasMetrics CHART_OUTPUT=/tmp/tmpYRm8q4/files/000/dataset_21.dat SUMMARY_OUTPUT=/tmp/tmpYRm8q4/files/000/dataset_19.dat SCAN_WINDOW_SIZE=100 MINIMUM_GENOME_FRACTION=5.0E-5 IS_BISULFITE_SEQUENCED=true INPUT=picard_CollectGcBiasMetrics_bam OUTPUT=/tmp/tmpYRm8q4/files/000/dataset_20.dat ASSUME_SORTED=true VERBOSITY=ERROR QUIET=true VALIDATION_STRINGENCY=LENIENT REFERENCE_SEQUENCE=localref.fa METRIC_ACCUMULATION_LEVEL=[ALL_READS] ALSO_IGNORE_DUPLICATES=false STOP_AFTER=0 COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json USE_JDK_DEFLATER=false USE_JDK_INFLATER=false
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52fdfc45590a planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 00a7926c285bc4a339bd7deebf40b28f39c7d947-dirty
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3 ## htsjdk.samtools.metrics.StringHeader
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486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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4 # Started on: Sat Apr 14 09:28:18 CEST 2018
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52fdfc45590a planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 00a7926c285bc4a339bd7deebf40b28f39c7d947-dirty
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6 ## METRICS CLASS picard.analysis.GcBiasDetailMetrics
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7 ACCUMULATION_LEVEL READS_USED GC WINDOWS READ_STARTS MEAN_BASE_QUALITY NORMALIZED_COVERAGE ERROR_BAR_WIDTH SAMPLE LIBRARY READ_GROUP
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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8 All Reads ALL 0 0 118 20 0 0
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9 All Reads ALL 1 0 0 0 0 0
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35 All Reads ALL 27 18 0 0 0 0
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36 All Reads ALL 28 50 5 21 4.843529 2.166092
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37 All Reads ALL 29 47 0 0 0 0
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38 All Reads ALL 30 63 0 0 0 0
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39 All Reads ALL 31 97 4 20 1.997332 0.998666
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40 All Reads ALL 32 167 3 23 0.870095 0.50235
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41 All Reads ALL 33 178 4 22 1.088434 0.544217
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42 All Reads ALL 34 225 8 22 1.722144 0.60887
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43 All Reads ALL 35 291 5 22 0.832222 0.372181
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44 All Reads ALL 36 391 1 21 0.123875 0.123875
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45 All Reads ALL 37 506 4 24 0.382888 0.191444
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46 All Reads ALL 38 570 0 0 0 0
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47 All Reads ALL 39 640 0 0 0 0
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48 All Reads ALL 40 729 0 0 0 0
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49 All Reads ALL 41 846 1 24 0.057252 0.057252
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50 All Reads ALL 42 1060 1 24 0.045694 0.045694
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51 All Reads ALL 43 1182 13 22 0.532706 0.147746
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52 All Reads ALL 44 1113 8 22 0.348142 0.123087
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53 All Reads ALL 45 1161 7 20 0.29203 0.110377
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54 All Reads ALL 46 1113 5 20 0.217589 0.097309
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55 All Reads ALL 47 1035 8 23 0.374379 0.132363
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56 All Reads ALL 48 956 9 23 0.455981 0.151994
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57 All Reads ALL 49 913 1 24 0.053051 0.053051
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58 All Reads ALL 50 785 5 22 0.308505 0.137968
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59 All Reads ALL 51 607 5 22 0.398973 0.178426
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60 All Reads ALL 52 436 104 22 11.553373 1.132901
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61 All Reads ALL 53 354 13 23 1.778697 0.493322
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62 All Reads ALL 54 288 0 0 0 0
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63 All Reads ALL 55 232 6 21 1.252637 0.511387
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65 All Reads ALL 57 108 2 24 0.89695 0.634239
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486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
iuc
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85 All Reads ALL 77 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
iuc
parents: 7
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86 All Reads ALL 78 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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parents: 7
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87 All Reads ALL 79 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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parents: 7
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88 All Reads ALL 80 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
iuc
parents: 7
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89 All Reads ALL 81 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
iuc
parents: 7
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90 All Reads ALL 82 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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91 All Reads ALL 83 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
iuc
parents: 7
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92 All Reads ALL 84 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
iuc
parents: 7
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93 All Reads ALL 85 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
iuc
parents: 7
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94 All Reads ALL 86 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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parents: 7
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95 All Reads ALL 87 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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96 All Reads ALL 88 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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97 All Reads ALL 89 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
iuc
parents: 7
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98 All Reads ALL 90 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
iuc
parents: 7
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99 All Reads ALL 91 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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parents: 7
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100 All Reads ALL 92 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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101 All Reads ALL 93 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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102 All Reads ALL 94 0 0 0 0 0
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103 All Reads ALL 95 0 0 0 0 0
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104 All Reads ALL 96 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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parents: 7
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105 All Reads ALL 97 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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106 All Reads ALL 98 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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107 All Reads ALL 99 0 0 0 0 0
486d7500da69 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
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108 All Reads ALL 100 0 0 0 0 0
3
52fdfc45590a planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 00a7926c285bc4a339bd7deebf40b28f39c7d947-dirty
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