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how to export full BCR receptors with mutated nt? #1069

Answered by mizraelson
Angieiscute asked this question in Q&A
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Hi,
First of all, judging by the command, I think you use an outdated version of MiXCR. I would strongly recommend updating to the latest version as it has lots of improvements.

Regarding your question:

mixcr exportClones -p fullImputed returns clonotype tables with gene features imputed with germline nucleotides if a particular region (or a part of the region) is not covered. Lets say you library only partially covers FR1 region of V gene, then -p fullImputed will return the FR1 with capital letters for the part covered with the read and lower case letters imputed from the germline. In other words imputation doesn't have anything to do with hypermutations.

https://mixcr.com/mixcr/referen…

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@Angieiscute
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Answer selected by PoslavskySV
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Converted from issue

This discussion was converted from issue #1068 on April 11, 2023 14:40.