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Teichlab / celltypist

A tool for semi-automatic cell type classification
https://www.celltypist.org/
MIT License
254 stars 40 forks source link

Request: allow to specify AnnData layer to use #90

Open pcm32 opened 9 months ago

pcm32 commented 9 months ago

Sometimes, AnnData files will include other flavours in the .X, but not the log normalised version of the matrix. Would you be able to add an option in the CLI that would allow us to specify the AnnData layer to use instead of .X? Otherwise we would need to read the AnnData, modify it, save it and then load it into cell typist.

Thanks!

ChuanXu1 commented 9 months ago

@pcm32, layers are currently not supported; will add this option in the new version probably. Thanks for this suggestion.