Mercurial > repos > bgruening > agat
diff test-data/functional_annot/report.txt @ 3:a6318f87f2cd draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/agat commit ac954126686882dd6a64cea30070955344901a00
| author | bgruening |
|---|---|
| date | Thu, 15 Feb 2024 15:47:19 +0000 |
| parents | |
| children | e7449b2c14bf |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/functional_annot/report.txt Thu Feb 15 15:47:19 2024 +0000 @@ -0,0 +1,85 @@ +02/15/2024 +usage: /home/rlibouba/miniconda3/envs/__agat@1.2.0/bin/agat_sp_manage_functional_annotation.pl --gff annotation.gff -i /tmp/tmpvotn3s2b/files/d/a/b/dataset_dab3424c-9f01-4319-a841-302674d17b7c.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