Error if Compressed VCFs Input

AlexandrovLab / SigProfilerMatrixGenerator

SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations only to parts for the genome (e.g., exome or a custom BED file). The tool seamlessly integrates with other SigProfiler tools.

BSD 2-Clause "Simplified" License

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Error if Compressed VCFs Input #194

Closed DarioS closed 3 months ago

DarioS commented 3 months ago

However, it works well if all files are first unzipped by gunzip *gz.

>>> matGen.SigProfilerMatrixGeneratorFunc("SNV", "GRCh38", "/dski/dario/HeadNeck/shortVariants/cellLines/")
File format not supported

mdbarnesUCSD commented 3 months ago

Input files are expected to be placed in a directory and be unzipped. Please unzip all input VCF files.