Question: HISAT2 alignment for single end read
1
gravatar for Yuyayuya
2.2 years ago by
Yuyayuya120
USA
Yuyayuya120 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 • 3.1k views
ADD COMMENTlink modified 2.2 years ago by Devon Ryan96k • written 2.2 years ago by Yuyayuya120
2
gravatar for Devon Ryan
2.2 years ago by
Devon Ryan96k
Freiburg, Germany
Devon Ryan96k wrote:

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

ADD COMMENTlink written 2.2 years ago by Devon Ryan96k
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