Identify_ConservedCellTypes: Identify conserved cell types based on power of genes and...

In CACIMAR: Cross-Species Analysis of Cell Identities, Markers and Regulations

Identify conserved cell types based on power of genes and orthologs database

Description

Identify conserved cell types based on power of genes and orthologs database

Usage

Identify_ConservedCellTypes(
  OrthG,
  Species1_Marker_table,
  Species2_Marker_table,
  Species_name1,
  Species_name2
)

Arguments

OrthG	ortholog genes database
Species1_Marker_table	data.frame of species 1, should contain three column: 'gene', 'cluster' and 'power'
Species2_Marker_table	data.frame of species 2, should contain three column: 'gene', 'cluster' and 'power'
Species_name1	character, indicating the species names of Species1_Marker_table
Species_name2	character, indicating the species names of Species2_Marker_table

Value

list contains two elements: first one is details of conserved cell types, second one is matrix of cell types conserved score

Examples

load(system.file("extdata", "CellTypeAllMarkers.rda", package = "CACIMAR"))
expression <- Identify_ConservedCellTypes(OrthG_Mm_Zf,mm_Marker[1:30,],zf_Marker[1:30,],'mm','zf')

CACIMAR documentation built on May 18, 2022, 9:07 a.m.