Question: Help for OmicsBox - Blast2GO
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gravatar for dimitrischat
5 months ago by
dimitrischat120
dimitrischat120 wrote:

Hello,

I ran blastx and blastp locally with outfmt 16 (13-16 is ok with omicsbox). But when i try to run for both blastx blastp an error occurs at mapping stage: "There are no sequences with BLAST results to perform GO Mapping"

Do i need to put some extra options when i run blastx or blastp ?

I do this so i can get GO and KEGG pathways. Data for blastx/p are from trinity de novo assemby and then using SuperTranscripts

Should i use outfmt 14 which OmicsBox recommends is best between 13-16? Or it doesnt make any difference?

rna-seq • 190 views
ADD COMMENTlink written 5 months ago by dimitrischat120

Changing outfmt value only changes the output format, not your results, seems like it the database and filtering, so, what db are you using? NR? what parameters? How many hits did you get?

ADD REPLYlink written 5 months ago by JC11k

it seems like i had to rename the output with the extension .xml, then it worked.. As i recall i didnt have to do that with the previous version. Anyhow, thank you!! Cheers

ADD REPLYlink written 4 months ago by dimitrischat120
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