Question: HISAT2 alignment for single end read
1
gravatar for Yuyayuya
2.6 years ago by
Yuyayuya170
USA
Yuyayuya170 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 • 3.9k views
ADD COMMENTlink modified 2.6 years ago by Devon Ryan98k • written 2.6 years ago by Yuyayuya170
2
gravatar for Devon Ryan
2.6 years ago by
Devon Ryan98k
Freiburg, Germany
Devon Ryan98k wrote:

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

ADD COMMENTlink written 2.6 years ago by Devon Ryan98k
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: 1032 users visited in the last hour