generate oncoprint from input VCF file · Biostar

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generate oncoprint from input VCF file

Hi, Are there any packages to visualise the variants as a oncoprint from input VCF files? More specifically, I have a joint called, VEP annotated VCF file or GVCF file from germline samples. I intend to convert the GVCF file into MAF format(for visualisation) using the VCF2MAF package and not sure if it is up for the task? Appreciate any help/suggestions !! Thanks Shu

next-gen vcf2maf oncoprint

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updated 6.2 years ago by Thind amarinder

• written 9.6 years ago by shu2010 •

Any update to the problem?

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written 7.1 years ago by Shicheng Guo

Maybe one can try Vcf2maf https://github.com/mskcc/vcf2maf

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written 6.2 years ago by Thind amarinder

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