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UMCUGenetics / MutationalPatterns

R package for extracting and visualizing mutational patterns in base substitution catalogues
MIT License
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Mutation matrix as input instead of vcf files #80

Open tc86 opened 2 years ago

tc86 commented 2 years ago

Hi, are there any options to load mutational matrix generated from other tools to use as the input file instead of vcf files? I have more than 200 samples and creating the granges object from the vcf files is taking a very long time.

rhagelaar commented 2 years ago

Hi tc86,

This is possible when you read in your mut_matrix. I use the following command: mut_mat <- read.table("your_matrix.txt", sep = "\t", header = T) Hope this helps