Add option for regressing out cycling, mitochondrial and ribosomal influences

Mye-InfoBank / scRAFIKI

A nextflow pipeline for processing sc-RNASeq data, performing QC and integration and preparing the results for further investigation using cellxgene.

BSD 3-Clause "New" or "Revised" License

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Add option for regressing out cycling, mitochondrial and ribosomal influences #41

Open nictru opened 9 months ago

nictru commented 9 months ago

During the Edinburgh STSM we discovered that mitochondrial and ribosomal genes show up more often than expected in the differential expression results.

nictru commented 9 months ago

We should keep in mind, that we might lose some biological information through this

FPetitprez commented 9 months ago

We should keep in mind, that we might lose some biological information through this

Perhaps this would make more sense in the subsetted atlases only?

nictru commented 9 months ago

Yes, could be part of #42