celltype.enrichment: Perform cell type enrichment

Description Usage Arguments Details Value

Description

Perform cell type enrichment

Usage

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celltype.enrichment(object, species = "MUSMU", id.type = "SYMBOL",
  do.plot = T, top.k = 5, verbose = T, ...)

Arguments

object

A sincera oject

species

The species of the data, possible values include MUSMU - mouse, HOMSA - human

id.type

The type of gene identifier, possible values include SYMBOL - Entrez SYMBOL, EG - Entrez ID, ENSEMBL - Ensembl ID

do.plot

If TRUE, plot top enriched cell types per group at the end of the analysis

top.k

The number of top enriched cell types to be plotted at the end of the analysis

verbose

If TRUE, print verbose messages

Details

Please note that the default gene-celltype association table was constructed based on mouse genes. The use of this function for human single cell analysis is still under testing.

Value

The updated sincera object with enrichment results in the cte slot


minzheguo/SINCERA documentation built on Feb. 3, 2021, 2:31 p.m.