How to tell the Clusters to use the VAF in MAF input?

AlexandrovLab / SigProfilerClusters

Tool for analyzing the inter-mutational distances between SNV-SNV and INDEL-INDEL mutations. Tool separates mutations into clustered and non-clustered groups on a sample-dependent basis.

BSD 2-Clause "Simplified" License

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How to tell the Clusters to use the VAF in MAF input? #13

Closed lincj1994 closed 2 years ago

lincj1994 commented 2 years ago

Hi. Thanks for developing and maintaing such a cool tool. I'm wondering how to tell the Clusters to use the VAFs if the input file is in MAF format. Thanks. Lin.

ebergstr commented 2 years ago

Hi Lin,

The tool will only work with VAFs if the input files are provided in VCF format. Please see the following page on our wiki page for an example of the accepted VCF (with VAFs) format.

https://osf.io/qpmzw/wiki/5.%20Quick%20Start%20Example/

Thanks! Erik