Question: HISAT2 alignment for single end read
0
gravatar for Yuyayuya
9 months ago by
Yuyayuya80
USA
Yuyayuya80 wrote:

I have one set of RNA-seq samples which are single-end read. Can I use -U to import my sample to do the alignment in HISAT2?

hisat2 [options]* -x <hisat2-idx> {-1 <m1> -2 <m2> | -U <r> | --sra-acc <SRA accession number>} [-S <hit>]

rna-seq • 1.2k views
ADD COMMENTlink modified 9 months ago by Devon Ryan88k • written 9 months ago by Yuyayuya80
1
gravatar for Devon Ryan
9 months ago by
Devon Ryan88k
Freiburg, Germany
Devon Ryan88k wrote:

Yes, you want -U rather than -1 and -2.

ADD COMMENTlink written 9 months ago by Devon Ryan88k
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