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Teichlab / bbknn

Batch balanced KNN
MIT License
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BBKNN for ATAC data #61

Open wlason opened 4 months ago

wlason commented 4 months ago

Hi! Thank you for the awesome package :) I was wondering if it is possible to use other dimensionality reduction methods than PCA for bbknn.bbknn, such as LSI which is commonly used for ATAC data? use_rep argument would suggest it is possible, but I wanted to check what your thoughts were before running it!

ktpolanski commented 4 months ago

Correct - just point use_rep to whatever you want to use from .obsm.