Hello, I wanted to extract the allele counts and homozygotes count from gnomad v211 and v31. I followed the command from this thread and I was able to get the output in form of TSV, however I want the output in vcf format. Trying to export the same as VCF gives me only loci and ref/alt. The comma…

Extracting gnomad counts into a vcf file

tpoterba March 8, 2021, 1:22pm 5

See here for how to set memory configurations using the PYSPARK_SUBMIT_ARGS environment var: Java Heap Space out of memory - #5 by yl3336

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