I am using hisat2 for alginment and then take the aligned file as htseq-count input for counting. In this case, is it preferable to set --dta parameter in hisat2 (all other parameters are default)? I know this parameter is designed for transcriptome assembly and require longer anchor for novel splice junctions, but I am not sure how it affects results on rnaseq counting tools such as htseq-count.
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Question: Question about Hisat2 + htseq-count
20 months ago by
gujh • 0
gujh • 0 wrote:
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