Mapping reads on small reference genomes

0

Entering edit mode

9.2 years ago

silas008 ▴ 170

Hi...

I need to align reads of miRNA sequencing on 2 small genomes of 2 virus. I use currently bowtie2 in --very-sensitive-local mode. There is an specific mode for this small genomes? What is the best mode of alignment for this type of mapping?

Thank you

miRNA alignment • 2.0k views

ADD COMMENT • link updated 2.2 years ago by Ram 44k • written 9.2 years ago by silas008 ▴ 170

0

Entering edit mode

Your miRNA's are 21b? And your virus around ..k in x segments?

ADD REPLY • link updated 2.2 years ago by Ram 44k • written 9.2 years ago by ALchEmiXt ★ 1.9k

0

Entering edit mode

I have found bbmap to work best.

ADD REPLY • link updated 2.2 years ago by Ram 44k • written 9.2 years ago by Adrian Pelin ★ 2.6k

Login before adding your answer.

Similar Posts

Loading Similar Posts

Traffic: 1719 users visited in the last hour

Content Search
Users
Tags
Badges

Help About
FAQ

Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the

version 2.3.6