Mercurial > repos > abims-sbr > orthogroups_tool

annotate test-data/2_orthogroups_tool.output @ 4:427dd144d915 draft

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planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
author abims-sbr
date Tue, 27 Feb 2018 08:42:05 -0500
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427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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2 -This script works on the 'Orthogroups' file output of Orthofinder to split each orthogroup in a single fasta file.
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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3 -It also gets rid of orthogroups with less sequences than the number specified by the user.
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
abims-sbr
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4 Building hashTable IDs/sequences ...
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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6 Reading Orthogroups.txt and writing orthogroups to separated files...
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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7 (Dropping orthogroups of less than 2 loci.)
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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9 Summary before paralogous filtering :
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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11 2 sps 3 sps 4 sps
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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12 2 seqs 1 0 0
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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13 3 seqs 1 3 0
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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14 5 seqs 0 0 1
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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15 8 seqs 0 1 0
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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17 Summary after paralogous filtering :
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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19 2 sps 3 sps 4 sps
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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20 2 seqs 2 0 0
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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21 3 seqs 0 4 0
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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22 4 seqs 0 0 1
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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24 7 filtered orthogroups have been written in separated files
427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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427dd144d915 planemo upload for repository htpps://github.com/abims-sbr/adaptearch commit 17acd02c547bd1f7661a846661aa99de9743efe9
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26 Filtered orthogroups are written in the directory 'filtered_orthogroups'