fix full.aln to have correct VARIANT count when running snippy-core#531
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hsnguyen wants to merge 5 commits intotseemann:masterfrom
Open
fix full.aln to have correct VARIANT count when running snippy-core#531hsnguyen wants to merge 5 commits intotseemann:masterfrom
hsnguyen wants to merge 5 commits intotseemann:masterfrom
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@hsnguyen I am sorry i never looked at my PRs since COVID. Your work is good, but I think we can now use |
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Output
This wouldn't affect core genome alignment or anything case-insensitive downstream from running
snippy-core, just want to have correct count of variant sites from the.full.alnin thePREFIX.txtfile (VARIANT column) according to README:ATGCatgcCode change
The loop to lowercase variants of all samples won't be broken when the site is found not core