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identify the total number of annotated proteins #7

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sumitra20 opened this issue Jun 13, 2023 · 0 comments
Open

identify the total number of annotated proteins #7

sumitra20 opened this issue Jun 13, 2023 · 0 comments

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@sumitra20
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how do i identify the total number of annotated proteins based on pfam, eggnogg, kegg and GO? Below was my output. Not sure which numbers i should refer to (the one i bolded only refers to pfam?)

summary_trinotate(x)
unique total
gene_id 5865084 7308511
transcript_id 7216461 7308511
transcript 7216461 7308511
prot_id 2692439 2692439
prot_coords 203930 2692439
peptide 2617888 2692439
sprot_Top_BLASTX_hit 2178146 2271187
gene_ontology_BLASTX 29204 2227661
EggNM.seed_ortholog 755761 2217121
EggNM.evalue 135967 2217121
EggNM.score 1545 2217121
EggNM.eggNOG_OGs 365530 2217121
EggNM.max_annot_lvl 906 2217121
EggNM.COG_category 327 2119467
EggNM.Description 30756 2119467
EggNM.PFAMs 31736 2050268
Kegg 136229 1984373
Pfam 1507493 1583477
eggnog 3505 1388277
EggNM.KEGG_ko 16716 1247926
EggNM.BRITE 1408 1247926
sprot_Top_BLASTP_hit 951219 995203
gene_ontology_BLASTP 23637 973701
gene_ontology_Pfam 4893 847970
EggNM.KEGG_Pathway 3365 798554
EggNM.EC 5377 658227
EggNM.Preferred_name 17164 655023
EggNM.KEGG_Module 1918 547698
EggNM.KEGG_Reaction 4280 513361
EggNM.KEGG_rclass 2466 495360
TmHMM 123277 471531
EggNM.KEGG_TC 1518 291724
EggNM.GOs 9696 167319
infernal 56925 69862
EggNM.CAZy 221 41066
EggNM.BiGG_Reaction 2568 31592

         unique annotations

Pfam 9050 2303520
genes 1105081 1582815
transcripts 1534680 2188722
proteins 1583477 2193455

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