This is a test version of Biostars. For the public version, visit https://www.biostars.org.
How to check the quality of fasta file

We use fastqc tool to check the quality of the data. But which tool we can use to check the quality of fasta file?

fastqc fasta
• 1,968 views • link
updated by ATpoint ATpoint • written by anasjamshed anasjamshed

1 answer

we can use to check the quality of fasta file?

Fasta data does not have any quality values/basecall confidence measure associated with it. So nothing to check.

• 0 views • link
written by GenoMax GenoMax

But then how we can check the fasta file?

• 0 views • link
written by anasjamshed anasjamshed

Check for what? What is it that you want to do?

• 0 views • link
written by GenoMax GenoMax

I want to check it to remove the duplicates

• 0 views • link
written by anasjamshed anasjamshed

Depending on what it is you are trying to remove duplicates from you can use CD-HIT (LINK) or even clumpify.sh will probably work.

• 0 views • link
written by GenoMax GenoMax

Log in to answer this question.

More posts like this