Mercurial > repos > abims-sbr > pogs

annotate test-data/pogs.output @ 12:752786fe211b draft default tip

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planemo upload for repository https://github.com/abims-sbr/adaptsearch commit 3c7982d775b6f3b472f6514d791edcb43cd258a1
author lecorguille
date Mon, 24 Sep 2018 03:57:14 -0400
parents b19ed7395dcc
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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1 *** pogs.py ***
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dad7053ba20e planemo upload for repository https://github.com/abims-sbr/adaptsearch commit 44a89d5eeb82789bfc643b33c11f391281b6374b
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b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
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3 Building of orthogroups based on pairs of genes obtained by pairwise comparisons between pairs of species.
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
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4 Genes are gathered in orthogroups based on the principle of transitivity between genes pairs.
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dad7053ba20e planemo upload for repository https://github.com/abims-sbr/adaptsearch commit 44a89d5eeb82789bfc643b33c11f391281b6374b
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b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
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6 Parsing input files ...
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
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7 Creating Orthogroups ...
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dad7053ba20e planemo upload for repository https://github.com/abims-sbr/adaptsearch commit 44a89d5eeb82789bfc643b33c11f391281b6374b
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b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
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9 Summary before paralogous filtering :
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dad7053ba20e planemo upload for repository https://github.com/abims-sbr/adaptsearch commit 44a89d5eeb82789bfc643b33c11f391281b6374b
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b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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11 2 sps 3 sps 4 sps
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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12 2 seqs 1394 0 0
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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13 3 seqs 0 163 0
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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14 4 seqs 0 26 33
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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15 5 seqs 0 3 17
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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16 6 seqs 0 0 17
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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17 7 seqs 0 0 7
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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18 8 seqs 0 0 2
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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19 11 seqs 0 0 1
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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20 13 seqs 0 0 1
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dad7053ba20e planemo upload for repository https://github.com/abims-sbr/adaptsearch commit 44a89d5eeb82789bfc643b33c11f391281b6374b
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b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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22 Writing orthogroups with paralogs files ...
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
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24 Filtering paralogous sequences and writing final orthogroups files ...
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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25 (Dropping Orthogroups with less than 3 species)
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
parents: 5
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27 Summary after paralogous filtering :
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dad7053ba20e planemo upload for repository https://github.com/abims-sbr/adaptsearch commit 44a89d5eeb82789bfc643b33c11f391281b6374b
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b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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29 3 sps 4 sps
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
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30 3 seqs 192 0
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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31 4 seqs 0 78
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dad7053ba20e planemo upload for repository https://github.com/abims-sbr/adaptsearch commit 44a89d5eeb82789bfc643b33c11f391281b6374b
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b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
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33 270 orthogroups have been infered from 6 pairwise comparisons by RBH
b19ed7395dcc planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
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