Hello,
I'm wondering how one can I know if a gene has a germline or somatic mutation from the data I have.
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Preprocessing exome data for germline variant analysis
Hello
I am working in preprocessing the exome data. I need some inputs in some of the preprocessing steps. I have included the read group... -
VQSR mixture model and tranches plot doubts (GATK 4.1.7.0)
Hello everyone:
I am processing 74 germline exome sequencing samples of Mexican childhood patients on GATK 4.1.7.0. After VariantRecalibrator... -
The N+1 problem in GATK 4
At our place we use GATK (3-series) for germline SNV/INDEL calling in a clinical setup, and we are now considering how to make the move to the new GATK... -
Germline variant calling using tumor-normal pairs in GATK
Hi
i have tumor normal pairs and am interested in calling germline variants. The GATK UnifiedGenotyper does seem to call the germline variants... -
WES - how deep do you sequence your germline control
Hello Seqers,
we currently do WES with a mean coverage of ~120x for tumor as well as the germline samples. Since we only use the germline...
