Mercurial > repos > bgruening > agat
view test-data/functional_annot/report.txt @ 5:e7449b2c14bf draft default tip
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/agat commit 28a6a1644ff8ffd8c3a47ccaaad0cb2da2aa87e3
| author | bgruening |
|---|---|
| date | Wed, 07 Aug 2024 20:54:27 +0000 |
| parents | a6318f87f2cd |
| children |
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08/07/2024 usage: /usr/local/bin/agat_sp_manage_functional_annotation.pl --gff annotation.gff3 --interpro /tmp/tmpfrax2fi0/files/1/a/8/dataset_1a8bf643-33d2-43bd-b647-4dc301ad8c40.dat -pe 5 -o galaxy_functional_annot -------------------------------------------------------------------------------- ------------------------------------- mrna ------------------------------------- Number of gene 2 Number of mrna 2 Number of cds 2 Number of exon 2 Number of exon in cds 2 Number gene overlapping 0 Number of single exon gene 2 Number of single exon mrna 2 mean mrnas per gene 1.0 mean cdss per mrna 1.0 mean exons per mrna 1.0 mean exons per cds 1.0 Total gene length (bp) 3294 Total mrna length (bp) 3294 Total cds length (bp) 3294 Total exon length (bp) 3294 mean gene length (bp) 1647 mean mrna length (bp) 1647 mean cds length (bp) 1647 mean exon length (bp) 1647 mean cds piece length (bp) 1647 Longest gene (bp) 2415 Longest mrna (bp) 2415 Longest cds (bp) 2415 Longest exon (bp) 2415 Longest cds piece (bp) 2415 Shortest gene (bp) 879 Shortest mrna (bp) 879 Shortest cds piece (bp) 879 ---------------------------------- transcript ---------------------------------- Number of gene 8 Number of transcript 8 Number of cds 7 Number of exon 8 Number of exon in cds 7 Number gene overlapping 2 Number of single exon gene 8 Number of single exon transcript 8 mean transcripts per gene 1.0 mean cdss per transcript 0.9 mean exons per transcript 1.0 mean exons per cds 1.0 Total gene length (bp) 6501 Total transcript length (bp) 6501 Total cds length (bp) 5688 Total exon length (bp) 6501 mean gene length (bp) 812 mean transcript length (bp) 812 mean cds length (bp) 812 mean exon length (bp) 812 mean cds piece length (bp) 812 Longest gene (bp) 1149 Longest transcript (bp) 1149 Longest cds (bp) 1149 Longest exon (bp) 1149 Longest cds piece (bp) 1149 Shortest gene (bp) 399 Shortest transcript (bp) 399 Shortest cds piece (bp) 399 _________________________________________________________________________________________________________________________________ | | Nb Total term | Nb mRNA with term | Nb mRNA updated by term | Nb gene updated by term | | | in raw File | in raw File | in our annotation file | in our annotation file | |_________________________________________________________________________________________________________________________________| | GO | 1 | | 0 | 0 | |_________________________________________________________________________________________________________________________________| | InterPro | 2 | | 0 | 0 | |_________________________________________________________________________________________________________________________________| | MetaCyc | 275 | | 0 | 0 | |_________________________________________________________________________________________________________________________________| | ProSitePatterns | 2 | | 0 | 0 | |_________________________________________________________________________________________________________________________________| | Reactome | 95 | | 0 | 0 | |_________________________________________________________________________________________________________________________________| nb mRNA without Functional annotation (GO,InterPro,MetaCyc,ProSitePatterns,Reactome) = 10 nb mRNA with Functional annotation (GO,InterPro,MetaCyc,ProSitePatterns,Reactome) = 0 nb gene without Functional annotation (GO,InterPro,MetaCyc,ProSitePatterns,Reactome) = 10 nb gene with Functional annotation (GO,InterPro,MetaCyc,ProSitePatterns,Reactome) = 0