Issue Running SomaticCombiner
Hi!
I have been trying to run this software to combine the mutation calls from software Mutect2 and MuSE from a single sample, but have been running into issues. I checked that both vcfs are not empty. Here is a screenshot of the output. Does anyone know what the warning means? The MuSE VCF defines the tumor and normal sample used to call the somatic mutations.
I would appreciate any help/advice that anyone has to offer. Or, is there another similar tool that I could use instead?
Thanks,
Emily
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Hi! I'm also encountering the same error in somaticCombiner V1.03 using mutect2 and varscan vcfs as input. I wonder if it has something to do with the variations in vcf files produced by different callers. Have you determined what this error message means?
Error: the samples in <sample_name> not equals to 2 or 0! The variants in this file will be skipped!