hyperQueryCellTypes: Runs a query and performs the hypergeometric test for the...

In hemberg-lab/scfind: A search tool for single cell RNA-seq data by gene lists

Runs a query and performs the hypergeometric test for the retrieved cell types

Description

Runs a query and performs the hypergeometric test for the retrieved cell types

Usage

cell.types.phyper.test(object, gene.list, datasets)

## S4 method for signature 'SCFind,character'
hyperQueryCellTypes(object, gene.list,
  datasets)

Arguments

object	the SCFind object
gene.list	genes to be searched in the gene.index (Operators: "-gene" to exclude a gene | "*gene" either gene is expressed "*-gene" either gene is expressed to be excluded)
datasets	the datasets vector that will be tested as background for the hypergeometric test

Value

a DataFrame that contains all cell types with the respective cell cardinality and the hypergeometric test

hemberg-lab/scfind documentation built on March 27, 2022, 8:56 p.m.