icbi-lab / infercnvpy

Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.

Home Page:https://infercnvpy.readthedocs.io/en/latest/

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how are gene counts in groups that are all 0 handled

amjass12 opened this issue · comments

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Hi,

I am running infercnv on control normal cells versus tumour cells.

I was just wondering how genes that have all 0 in a cancer cells but counts in normal cells are handled? I cannot quite find how this behaviour is handled? Would this 'falsely' show as loss and if so, would this be incorrect/ a bug?

Many thanks!

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