Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Tutorials
Tools
Jobs
Forum
Planet
All »
Home
Log In
Question: Is there any way to avoid adding the PG tag while creating a SAM output from BWA ?
0
gravatar for lakhujanivijay
6 days ago by
lakhujanivijay ♦ 4.6k
India
lakhujanivijay ♦ 4.6k wrote:

Hi

Is there any way to avoid adding the PG tag while creating a SAM output from BWA ? The only option I could think of is to use samtools reheader and adding a new header without the PG tag. I am wondering if that would be possible during the mapping step itself.
bwa sam pg • 59 views
ADD COMMENT • link •
modified 6 days ago by Devon Ryan ♦ 93k • written 6 days ago by lakhujanivijay ♦ 4.6k
1
gravatar for Devon Ryan
6 days ago by
Devon Ryan ♦ 93k
Freiburg, Germany
Devon Ryan ♦ 93k wrote:

You can pipe the output through grep and use grep -v @PG, but the question then becomes why you would actually want to do that. It's usually best to keep that information in there in case you need it down the line.
ADD COMMENT • link written 6 days ago by Devon Ryan ♦ 93k

Yep, I also suggest to keep it in case you mislable the file accidentlly so this entry might help you figuring out what the file actually contains and how it was created.

ADD REPLY • link written 6 days ago by ATpoint ♦ 26k
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 847 users visited in the last hour