COSMIC_db_v89.md

COSMIC

For annovar db use

GRCh38/cosmic/v89/

COSMIC mutation data

Download:

• CosmicMutantExport.tsv.gz

• CosmicNCV.tsv

Coding and Non-conding mutations

Download:

• CosmicCodingMuts.vcf.gz

• CosmicNonCodingVariants.vcf.gz

prepare_annovar_user.pl -dbtype cosmic CosmicMutantExport.tsv -vcf CosmicCodingMuts.vcf > hg38_cosmic89_coding.txt
prepare_annovar_user.pl -dbtype cosmic CosmicNCV.tsv -vcf CosmicNonCodingVariants.vcf > hg38_cosmic89_noncoding.txt

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GRCh37/cosmic/v89/

COSMIC mutation data

Download:

• CosmicMutantExport.tsv.gz

• CosmicNCV.tsv

Coding and Non-conding mutations

Download:

• CosmicCodingMuts.vcf.gz

• CosmicNonCodingVariants.vcf.gz

prepare_annovar_user.pl -dbtype cosmic CosmicMutantExport.tsv -vcf CosmicCodingMuts.vcf > hg19_cosmic89_coding.txt
prepare_annovar_user.pl -dbtype cosmic CosmicNCV.tsv -vcf CosmicNonCodingVariants.vcf > hg19_cosmic89_noncoding.txt