How to perform GO enrichment analysis for assembled sequence ?

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4 weeks ago

Sony ▴ 10

Hello everyone,

I have an assembled sequence of Brassica. I already blast search assembled contigs against Plant SwissProt protein database. The command that I used:

blastx -query clean.fasta -db uniprot_sprot_plants_db -outfmt 6 -evalue 1e-5 -out blast_masurca_plantswissprot.tsv -num_threads 4

I want to perform the GO enrichment analysis, annotated sequences with Gene Ontology. I have read the manual of Blast2Go, but I have so many problems. Is there any possible program using the command line to do that, and can generate the results via charts and graphs to easily visualise?

Thank you.

GO-enrichment Gene-Ontology • 179 views

ADD COMMENT • link updated 4 weeks ago by Ram 43k • written 4 weeks ago by Sony ▴ 10

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you say you have so many problems with Blast2Go, what are these problems?

also make you understand that what you seem to want is a functional annotation not an GO enrichment analysis

ADD REPLY • link 4 weeks ago by Istvan Albert 100k

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