Hi All 

I am confused in extracting  the RGID, RGLB and RGPU from this read, any help, thanks? 

    @E00461:116:AU170602261:1:1101:20456:1415 1:N:0:NTCCAGGT

And if I have each sample is a tumor from a different patient, should I use RGSM as the different sample patient ID? 

Thanks 

Hi Tania 

I used this tutorial to get those values from the fastq files, https://angus.readthedocs.io/en/2017/GATK_pipeline.html

Jump to: **4. Add Read group information and do mapping**