Dear all,
I have not been able to find any commentary on this so far so hoping for some help here.
What is a reasonable minimum number of cells per group for pseudobulking or for performing differential expression/Marker gene identification using MAST etc. I see in the muscat code (https://rdrr.io/bioc/muscat/f/vignettes/analysis.Rmd) a 10 cell minimum is used by default but I couldn't find any data behind this in the paper. Is this reasonable statistically?
Furthermore, any thoughts on best practises when comparing groups with a large discrepancy in cell number (e.g. 100 cells vs 1000+ cells)
I'm looking for some data investigating this if possible
Thanks in advance,
0 answers
No answers yet.
Log in to answer this question.
-
Weak overlap of cell states of scRNAseq and Xenium data of the same samples
written by Beginner •
-
Subsetting before QC in Spatial Transcriptomics
written by Kent •
-
Calculating percentage of cells proliferating in single cell rna seq data
written by mropri
-
Seeking Guidance on How to Annotate Unusual Cell Populations in Single-Cell Data
written by Daddy •
-
Why do some genes are more prone to dropout effect in scRNA-seq?
written by Ergün •
-
Cell type deconvolution from Bulk RNA-seq data
written by Anand •
-
cellranger: min gene count and UMI/cell filter?
written by mcsimenc •
-
Regressing on cell cycle genes in scRNA-Seq
written by oriolebaltimore
-
Data mining to generate a scRNA-seq coexpression network analysis for selected genes
written by zdebruine •
-
Differential expression of scRNA-seq after Seurat
written by lshepard
