Question

How to remove the sequences from big single fasta file by using the seqIDs?

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5.6 years ago

ravi.raut • 0

How to remove the sequences from big single fasta file by using the seqIDs? Please suggest the solution.

alignment • 1000 views

ADD COMMENT • link 5.6 years ago by ravi.raut • 0

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The solution is to search this forum for previous answers to this question.

ADD REPLY • link 5.6 years ago by Joe 21k

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you can use seqtk or seqkit

ADD REPLY • link 5.6 years ago by cpad0112 21k

score 0 · Answer 1 · 2018-10-03

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5.6 years ago

GenoMax 141k

Take a look at faSomeRecords utility from Jim Kent.

faSomeRecords - Extract multiple fa records
usage:
   faSomeRecords in.fa listFile out.fa
options:
   -exclude - output sequences not in the list file.

ADD COMMENT • link 5.6 years ago by GenoMax 141k