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Input_file and annotation #55
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Dear Palimpsest developer,
First of all, thank you very much for giving an opportunity to use a wonderful tool for mutational analysis.
I am exciting to use this and hopefully I would get used to it soon.
I have questions, maybe this could be an inappropriate to post as issues, however, I should be happy if I get your feedback.
Based on the previous response to the "preprocess input_snv error" and judging from the exercise dataset (vcf.RData), VCF file should have the following columns;
https://github.com/FunGeST/Palimpsest#input-files.
How did you make them? Did you generate input dataset manually from vcf files?
My vcf file does not have the required columns, so I got an error.
Please find an attached screenshot.
What is the Tumor_Varcount?
It states as "Number of variant bases at the position in the tumor sample" but how to get it?
Best regards,
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