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HKU-BAL / ClairS-TO

ClairS-TO - a deep-learning method for tumor-only somatic variant calling
BSD 3-Clause "New" or "Revised" License
37 stars 3 forks source link

Different output #13

Open pcr876 opened 1 month ago

pcr876 commented 1 month ago

Hi,

First of all thank you for ClairS-TO. I have been trying to use it with bed file option. I get different output for the same sample if I re-run it. In some output, it skips certain positions of a chromosome. It shows in the tmp file if I check individual chromosome vcf file. But some positions or entire chromosome get missed out in a merged output vcf. Also does not show phasing in a final vcf.

Thank you in advance.

Shreya

aquaskyline commented 1 month ago

can you send us the complete log file.

pcr876 commented 3 weeks ago

I have emailed you the files @aquaskyline