cellTypeMarkers: return all the gene markers for a specified cell.type

In YY-SONG0718/scfindME: This is a package that adaps "scfind", a search tool for single cell RNA-seq data by gene lists, to alternative splicing analysis

return all the gene markers for a specified cell.type

Description

return all the gene markers for a specified cell.type

Find marker genes for a specific cell type

Usage

cellTypeMarkers(
  object,
  cell.types,
  background.cell.types,
  top.k = 5,
  sort.field = "f1"
)

cell.type.marker(object, cell.types, background.cell.types, top.k, sort.field)

## S4 method for signature 'SCFind,character'
cellTypeMarkers(
  object,
  cell.types,
  background.cell.types,
  top.k = 5,
  sort.field = "f1"
)

Arguments

object	SCFind object
cell.types	the cell types that we want to extract the marker genes
background.cell.types	the universe of cell.types to consider
top.k	how many genes to retrieve
sort.field	the dataframe will be sorted according to this field

Value

a data.frame that each row represent a gene score for a specific cell type

YY-SONG0718/scfindME documentation built on April 17, 2023, 4:27 a.m.