search

campbio / decontX

Methods for decontamination of single cell data
MIT License
26 stars 1 forks source link

Is output matrix can be input for eQTL? #22

Open tewengtong opened 1 month ago

tewengtong commented 1 month ago

Dear Author:

I am doing single-cell scale eQTL analysis. I wonder if it is okay to use the corrected count matrix by decontx() to be the phenotype of eQTL? Or I should use the count matrix before correction?

Thank you so much!

joshua-d-campbell commented 1 month ago

Hello @tewengtong. Thanks for your question. Yes, this matrix can be used for any down-stream analysis in the same way that you would use the original counts matrix. Note that this matrix is still "raw" counts and needs to be normalized in any clustering or eQTL workflow.

tewengtong commented 3 weeks ago

Thank you!