Question: HTseq feature count handling of transcripts with shared exons?
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gravatar for danekhoffman0319
6 weeks ago by
danekhoffman03190 wrote:

I am curious to know how htseq will assign a read to a particular transcript if said read maps to a shared exon between two isoforms? If anyone has any experience with this or can offer any insight it would be greatly appreciated. Thank you in advance.

dge rna-seq htseq • 117 views
ADD COMMENTlink modified 6 weeks ago by i.sudbery9.4k • written 6 weeks ago by danekhoffman03190
1
gravatar for i.sudbery
6 weeks ago by
i.sudbery9.4k
Sheffield, UK
i.sudbery9.4k wrote:

HTseq can only count at a gene level, not a transcript level, for precisely this reason.

ADD COMMENTlink written 6 weeks ago by i.sudbery9.4k

Thank you, this is what I suspected but I wanted a second opinion!

ADD REPLYlink written 6 weeks ago by danekhoffman03190
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