DEbyClust: Cluster-wise test for DEGs of Seurat Object

In genejockey33000/typGumbo: Scripts and Pipelines for RNAseq Analysis

Cluster-wise test for DEGs of Seurat Object

Description

For analysis within each cluster (or other set of cell group defined in meta.data) for DEGs (markers) that are significant between specified comparison. Comparison must exist as a column in seuratObject(at)meta.data" column with two possible values (i.e. ko, wt, or treated, sham)

Usage

DEbyClust(x, group = "seurat_clusters", comp = NULL)

Arguments

x	Seurat object with clusters defined
group	Category to compare with ("seurat_clusters" is default). Can be any parameter specified in meta.data column that segregated cells into labeled groups.
comp	Comparison to be tested. Must be specified and be a column in meta.data. Use quoted column header of comparison, i.e. comp = "treatment" where "treatment" is a column header for cells that were "stim." or "vehicle".

genejockey33000/typGumbo documentation built on July 20, 2023, 11:45 p.m.