CalculateModuleScoreAvg: CalculateModuleScoreAvg

In bimberlabinternal/OOSAP: OHSU-ONPRC Single-cell Analysis Package

Description

Instead of the status quo score of Seurat AddModuleScore which is 1 score 1 gene, this function takes a list of genes and computes per set, the average of the individual scores.

Usage

CalculateModuleScoreAvg(
  seuratObj,
  genes.list = NULL,
  genes.pool = NULL,
  n.bin = 25,
  ctrl.size = 100,
  assay = NULL,
  seed.use = 1
)

Arguments

seuratObj,	A Seurat object.
genes.list,	A charater vector of genes to score
genes.pool,	Gene list to base as the pool; NULL = all.
n.bin,	number of bins to evaluate score across; default 25.
ctrl.size,	control gene set size.
assay,	The seurat assay to use. Defaults to the result of DefaultAssay()
seed.use,	random seed

Value

A dataframe with CellBarcode and Score for this gene set

bimberlabinternal/OOSAP documentation built on Jan. 19, 2021, 2:47 a.m.