How to replace a stretch of a sequence with N's in a fasta file
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3.1 years ago
Grinch ▴ 90

Hi! I´m trying to change a stretch of 300,000 nucleotides on chromosome 21, with NNN´s in a fasta file. This turned out to be not such a trivial task. I searched BioPython packages for a solution but can't find anything appropriate. It needs to a specific region between 8,202,082–8,552,360 nucleotides on chr 21. Any ideas?

fasta biopython • 1.3k views
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3.1 years ago
h.mon 32k

maskfasta from bedtools.

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That was a simple solution and it worked perfectly. I was overthinking how to solve it. Thank you!

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