Variant calling from merged bam file with one vcf output
0
0
Entering edit mode
6 weeks ago
askif4 ▴ 10

I have merged two different bam files with same @RG ids (with picard)

When I looked into the bam file however,

enter image description here

I found that the name "test" has changed.

I have matched the IDs for variant calling for one merged bam file.

When I tried merging different bam files and did normal variant calling, the output vcf file had more than one sample columns at the end. (the image below is an example for sample columns)

enter image description here

I want that sample column to be one.

How can I make merged bam files to be considered as one big bam file?

bam WGS variant calling • 101 views
ADD COMMENT

Login before adding your answer.

Traffic: 1013 users visited in the last hour
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