selectMarkerGenes: Select Marker Genes

In clajusch/ClEvaR: Cluster Evaluation in R

Description

Select potential marker genes from differentially expressed genes on effect size and presence in other clusters

Usage

selectMarkerGenes(FGDEGtab, minES = 0.5, maxClustersPerGene = 1,
  clusterColumn = "cluster_id", geneColumn = "entrez_id",
  effectColumn = "effect.size")

Arguments

FGDEGtab	The raw FASTGenomics Differentially Expressed Gene table, e.g. the output from FASTGenomics calc_de_genes_nonparametric.
minES	Minimal effect size for gene to be considered; defaults to 0.5.
maxClustersPerGene	Maximum number of clusters that contain a potential marker gene; defaults to 1.
clusterColumn	Column name for cluster assignment; defaults to "cluster_id".
geneColumn	Column name for gene ID; defaults to "entrez_id".
effectColumn	Column name for effect size; defaults to "effect.size".

Value

The filtered FASTGenomics Differentially Expressed Gene table.

clajusch/ClEvaR documentation built on May 9, 2019, 4:55 a.m.