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ngs-fzb / MTBseq_source

MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.
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same mutation multiple times #100

Open pratibha-kadam opened 1 week ago

pratibha-kadam commented 1 week ago

Hello Developers,

I have run the MTBseq pipeline for my 6000 TB samples.

I noticed that some mutations are repeated in the same .tab file.

I don't understand why is it so,

So shall I consider them as ![Uploading Screenshot 2024-09-12 120212.png…]() one mutation or are they separate?

cutpatel commented 6 days ago

Hi, unfortunately I cannot see your screenshot. Do you maybe mean multi snps affecting the same codon? At the moment these are reported on separate lines and the codon change may be therefore incorrect. We will soon release a new version which will take care of this.