Question: BAM tool?? tab-delimited, coordinate sorted output file - displays calls, depth at every coordinate?
0
gravatar for zhalford
4 weeks ago by
zhalford0
zhalford0 wrote:

I'm trying to figure out how to create a tab-delimited, coordinate sorted, file type that displays the depth at each coordinate included in the .bed file.

What file can I start with and what tools, if possible, can I use to modify to get the intended result I need?

samtools bam • 52 views
ADD COMMENTlink modified 28 days ago by Jennifer Hillman Jackson25k • written 4 weeks ago by zhalford0
0
gravatar for Jennifer Hillman Jackson
28 days ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Is your input BAM or BED? If BED, try the tools in the tool group BEDTools.

Variant calling and other analysis workflows are covered in the Galaxy tutorials: https://galaxyproject.org/learn/

FAQs: https://galaxyproject.org/support/ >> Common datatypes explained

Thanks! Jen, Galaxy team

ADD COMMENTlink written 28 days ago by Jennifer Hillman Jackson25k
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 16.09
Traffic: 154 users visited in the last hour