Open Nayrouz109 opened 1 year ago
The code in this repository requires a custom build of Seurat that has been modified to add additional DE methods, return test statistics in addition to p-values, and other functionality - cf. the Methods section of the Nat. Commun. paper:
The modified version of Seurat 3.1.5 used to perform all single-cell DE analyses reported in this study is available from http://github.com/jordansquair/Seurat.
Hello,
Thank you for providing the code, it's been really helpful.
I have a question about the
seurat_DE
function in theDE-analysis/R/functions/run_DE.R
, specifyingde_test = mixed_lm
results in an error (Unknown test: mixed_lm).So I am wondering, does
FindMarkers(test.use = "mixed_lm")
work?Thanks!