get_all_degs: Wrapper for FindMarkers() with formating for downstream LR...

In rwcrocker/SeuratAddons: Auxillary Functions for Seurat

Wrapper for FindMarkers() with formating for downstream LR analysis

Description

Wrapper for FindMarkers() with formating for downstream LR analysis

Usage

get_all_degs(
  obj,
  annotation,
  condition,
  reference,
  experimental,
  padj.cut = 0.05,
  log2fc.cut = 0.1
)

Arguments

obj	Seurat object
annotation	Column name of object meta.data to annotate identities by
condition	Column name of object meta.data to test DE against
reference	Value of condition column to use as reference for DE
experimental	Value of condition column to use as experimental condition for DE
padj.cut	Threshold for adjusted p-value
log2fc.cut	Threshold for log2-fold-change

Value

A single, merged DF of DEGs across every identity

rwcrocker/SeuratAddons documentation built on May 7, 2022, 1:08 a.m.