Hi all,
I'm trying to run MutSigCV on a set of mutation data for Triple-Negative Breast Cancer from TCGA. I generate a MAF with the function GDCquery_MAF from TCGAbiolinks package, and then write it as a file with the function write.table, with the following arguments: sep="\t", col.names=TRUE. When I run MutSigCV, I use the previous MAF file and, and the files that I could find here, under "Running MutSigCV when all you have is a MAF file": https://software.broadinstitute.org/cancer/cga/mutsig_run. However, I always get the same error, which is:
"Error using gp_MutSigCV>MutSig_preprocess (line 302) missing mutation_type_dictionary_file
Error in gp_MutSigCV (line 184)"
I tried it with different input files, the ones that are available online, etc... But I always get the same error.
Any idea of what I could be doing wrong?
Cheers
