CMenrich: CellMarker Enrichment

In iaconogi/enrichCM: A simple and fast enrichment tool to discover the putative cell types in your single cell dataset

Description

Given a list of markers, indentifies the putative cell type using the comphensive catlog creatd in

Usage

CMenrich(gene.list, species)

Arguments

gene.list	character vector with a list of Gene Symbols
species	Can either be human or mouse for the moment.

Value

A list two elememts. First element (enrichments) is a data.frame structured as follows:

• p.value P-value of the enrichment, the lower the better

• overlap How many common genes between your costom list and the markers of the given cell type

• signature Total markers of the given cell type

• genes Common genes

The second element is a list with the actual gene names for each enrichment.

Examples

results=CMenrich(gene.list=c('NEUROD1','ARX','CD79A'),species='human') .# some random gene names that I came up with ....

iaconogi/enrichCM documentation built on June 7, 2019, 2:37 p.m.