best package for DEG analysis from scRNA-seq data

Question

[jabbari.parnian]

Hi

I have log2 transformed tpm data of a single-cell RNA-seq experiment. What is the best R package to find differentially expressed genes from such data? from what I know DEseq is not optimal for scRNAseq.

Thanks,

Answer 1

[igor]

Seurat is a popular scRNA-seq analysis package. You should check the differential expression vignette they have where they describe a few different methods: https://satijalab.org/seurat/v3.1/de_vignette.html