Question: Bam file @RG read group information LB (The library from which the read has been sequenced)
0
gravatar for Sudhir Jadhao
18 months ago by
India
Sudhir Jadhao70 wrote:

Hello everyone,

I have 120 bam files. I want to run Breakdancer-max.

Bam file currently have below read group information

@RG ID:sample105_sg1_humansingle1_l1    SM:sample105_sg1_humansingle1   PL:ILLUMINA

To run Breakdancer LB (library) information is needed?

I don't have much idea about the sequencing of these samples

Is there any way, I can get library information from bam file itself?

sequencing alignment • 325 views
ADD COMMENTlink modified 18 months ago • written 18 months ago by Sudhir Jadhao70
0
gravatar for lakhujanivijay
18 months ago by
lakhujanivijay5.3k
India/Ahmedabad
lakhujanivijay5.3k wrote:

how I can get the library information for each bams file

Best is to ask the wetlab team who performed the experiment.

and this is the answer to how you can add LB - picard's AddOrReplaceReadGroups tool

java -jar AddOrReplaceReadGroups.jar
ADD COMMENTlink written 18 months ago by lakhujanivijay5.3k
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