get.variable.genes: Identify Highly Variable Genes

In asmagen/robustSingleCell: Robust Clustering of Single Cell RNA-Seq Data

Identify Highly Variable Genes

Description

Get highly variable genes by Heteroscedasticity controlled binning of gene expression measurements within each dataset separately.

Usage

get.variable.genes(environment, min.mean = 0.05, min.frac.cells = 0,
  min.dispersion.scaled = 1, rerun = F)

Arguments

environment	environment object
min.mean	minimum mean expression per gene
min.frac.cells	minimum fraction of cells expressing each gene
min.dispersion.scaled	minimum dispersion value
rerun	whether to rerun the analysis or load from cache

Value

environment parameter containing highly variable genes selection

Examples

LCMV1 <- setup_LCMV_example()
LCMV1 <- get.variable.genes(LCMV1)

asmagen/robustSingleCell documentation built on July 30, 2023, 6:48 a.m.