Mercurial > repos > abims-sbr > orthogroups_tool

annotate test-data/orthogroups_tool.output @ 1:3f862f346967 draft

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planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
author abims-sbr
date Wed, 17 Jan 2018 09:02:12 -0500
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children 427dd144d915
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3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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2 -This script works on the 'Orthogroups' file output of Orthofinder to split each orthogroup in a single fasta file.
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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3 -It also gets rid of orthogroups with less sequences than the number specified by the user.
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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4 Building hashTable IDs/sequences ...
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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6 Reading Orthogroups.txt and wrting orthogroups to separated files...
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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7 (Dropping orthogroups of less than 2 loci.)
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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9 Summary before paralogous filtering :
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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11 1 sps 2 sps 3 sps 4 sps
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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12 1 seqs 0 0 0 0
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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13 2 seqs 0 1 0 0
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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14 3 seqs 0 1 3 0
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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15 4 seqs 0 0 0 0
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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16 5 seqs 0 0 0 1
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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17 6 seqs 0 0 0 0
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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18 7 seqs 0 0 0 0
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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19 8 seqs 0 0 1 0
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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20 Summary after paralogous filtering :
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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22 1 sps 2 sps 3 sps 4 sps
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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23 1 seqs 0 0 0 0
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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24 2 seqs 0 2 0 0
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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25 3 seqs 0 0 4 0
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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26 4 seqs 0 0 0 1
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28 7 filtered orthogroups have been written in separated files
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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30 Filtered orthogroups are written in the directory 'filtered_orthogroups'
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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32 Full orthogroups files are written in the directory 'orthogroups_withParalogs'
3f862f346967 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit cf1b9c905931ca2ca25faa4844d45c908756472f-dirty
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