Is multi-threading possible for the GATK GermlineCNVCaller and PostprocessGermlineCNVCalls tools?
Is it possible to specify the number of threads for GATK GermlineCNVCaller and PostprocessGermlineCNVCalls?
After checking several websites, I understood that apparently some of the GATK tools have a Spark version that allows multi-threading, but neither GermlineCNVCaller nor PostprocessGermlineCNVCalls have the Spark version.
I also tried specifying --native-pair-hmm-threads, but apparently this flag is not valid for these two tools.
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
GenomicsDBImport completes successfully, but SelectVariants/GenotypeGVCFs hangs at “Starting traver…
written by chiyong4783 •
-
Somatic variant calling with Mutect2 using 2 matched-normals for one sample
written by Alexandros •
-
GATK showing error of reference file index
written by rj.rezwan •
-
Mutect2 is not detecting all available cores (multithreading)
written by garcesj •
-
GATK Mutect2 errors during basic variant calling
written by michael.flower.14 •
-
So many variants detected.
written by Mehmet
-
GATK 4 and Spark multithreading
written by Vic •
-
HaplotypeCallerSpark How to use
written by nanoide
-
Mutect2 (GATK4, Java8) outputs empty VCF file for tumor only mode
written by ResearchR
-
Error in GSNAP - unable to find genome in directory
written by graeme.thorn
