Question: HISAT2 alignment for single end read
1
gravatar for Yuyayuya
16 months ago by
Yuyayuya100
USA
Yuyayuya100 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 • 2.0k views
ADD COMMENTlink modified 16 months ago by Devon Ryan92k • written 16 months ago by Yuyayuya100
2
gravatar for Devon Ryan
16 months ago by
Devon Ryan92k
Freiburg, Germany
Devon Ryan92k wrote:

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

ADD COMMENTlink written 16 months ago by Devon Ryan92k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 887 users visited in the last hour