You have shown us your input data, but we haven't seen the code you already have written yet. Please show us your code and where in your code you have problems. Most likely, filling a hash with the names of your contigs and then extracting only those parts for which an entry in the hash exists is a good approach.

In reply to Re: How do i extract only contigs of interest by Corion
in thread How do i extract only contigs of interest by faozhi

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