GRCh38 vcf file with common cancer mutations Is there a vcf file on the GRCh38 assembly with common cancer mutations I can download somewhere? Maybe from one of the big international cancer genomics consortia?

By common, I mean whichever mutations have been found recurrent in different types of cancer.
Your question doesn't give enough information for a specific answer but this should do for a start.


Get the VCF file describing all variants in Clinvar from NCBI:

wget ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/vcf_GRCh38/clinvar.vcf.gz

Extract any variants whose VCF line contains the word "cancer":

zgrep -iE '^#|CLNDBN=[^;]*cancer' clinvar.vcf.gz &gt; cancer.vcf



Now, you should probably filter that further based on variant frequency, type of cancer, etc etc but that should be a good start.