I needed a mm9 dbSNP128 VCF file(v4 above) to integrate into our whole genome mouse sequencing pipeline using the GATK.
Anybody is lucky enough to generate this file? Broad Institute only provide human dbsnp VCF files. Sanger Institute does provide VCF3.3 files for the mouse strains they sequenced, but no VCF file is provided for mouse dbsnp128.
NCBI/UCSC only has mouse dbsnp128 in text format, and it is not easy to convert it to "workable" vcf file.
Anybody is lucky enough to generate this file? Broad Institute only provide human dbsnp VCF files. Sanger Institute does provide VCF3.3 files for the mouse strains they sequenced, but no VCF file is provided for mouse dbsnp128.
NCBI/UCSC only has mouse dbsnp128 in text format, and it is not easy to convert it to "workable" vcf file.
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