Retrieve only BLAST hit sequences from a de novo transcriptome
Hello!
I currently have a 255k assembled contigs transcriptome (de novo, Trinity) and I want to retrieve indentifiers and sequences in fasta format of the contigs that had hits in BLASTx (around 50%). There's any way to filter using the BLASTx output, an script and the transcriptome itself? O I should search an approach of parsing BLASTx output to contain sequences?.
Thanks in advance!
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natasha.sernova
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Cristian Vergara •
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Cristian Vergara •
1 answer
Many people have encountered the problem before. See their ports:
How to deal with many uncharacterized protein in the blastx results?
Annotating sequences after de-novo Trinity assembly and RSEM analysis...there must be an easier way!
or this guide:
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natasha.sernova
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