markerSelect: markerSelect

In zhupinglab/Aodav: Advanced omics data analysis and visualization

Description

select most cell-type representative genes from differential gene expression matrix

Usage

markerSelect(DEGs, obj, adjP = 0.05, fc = log(2), only.pos = T,
  gene.num = NULL, conserved = F, order = F)

Arguments

DEGs	differentially expressed gene matrix obtained from pwDEG, conservedMarkers, or Seurat function 'FindAllMarkers'.
obj	Seurat object
adjP	cutoff of adjusted p value to filter genes
fc	fold change to filter genes
only.pos	selection of cluster highly expressed genes.
gene.num	number of genes to select for each cluster
conserved	indication of input matix is obtained from function 'conservedMarkers'
order	sort genes by clusteirng their expression profiles

Examples

## Not run: 
markerSelect(DEGs, obj)
markerSelect(DEGs, obj, conserved = T) # this is for output from function 'conservedMarkers'

## End(Not run)

zhupinglab/Aodav documentation built on June 10, 2019, 2:31 a.m.