Using HTSeq-count on a SAM file?
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6.0 years ago
iannos ▴ 10

I am trying to use HTSeq-count on a SAM file I generated using HISAT2, however it looks like I need a GFF file? How do I generate one of those? Thanks!

RNA-Seq • 1.3k views
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You usually download one. Which organism?

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6.0 years ago
ahmad mousavi ▴ 800

Hi

For most of known organism you could use Ensemble FTP website it includes DNA sequences and GFF/GTF files. Just search your organism.

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