How to calculate base substitution mutation frequency (C>T T>A C>G T>C T>G C>A) from TCGA MAF files

Hi All,
I have TCGA MAF files and want to calculate base substitution mutation frequency (C>T , T>A , C>G , T>C , T>G , C>A) per sample. If anyone knows please help me ?

Thanks

tcga maf snp

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updated 7.2 years ago by Martina •

• written 7.2 years ago by Mike

1 answer

Hello, isn't maftools plotmafSummary what you are looking for? https://www.bioconductor.org/packages/release/bioc/vignettes/maftools/inst/doc/maftools.html

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written 7.2 years ago by Martina •

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