dot-map_celltypes: Main mapping function

.map_celltypesR Documentation

Main mapping function

Description

Main mapping function

Usage

.map_celltypes(
  ctdToMap,
  ctdToMapAgainst,
  inputSpecies = "human",
  mapAgainstSpecies = "human",
  annotLevel = 1,
  numTopMarkers = 50,
  mappingLevel = 2,
  reps = 1000
)

Arguments

ctdToMap

ctd for current expt

ctdToMapAgainst

the ctd to map against

inputSpecies

"human" or "mouse"

mapAgainstSpecies

"human" or "mouse"

annotLevel

level of annotation

numTopMarkers

number of top markers to consider

mappingLevel

level of mapping

Value

sce a SingleCellExperiment object annotated with sample metadata

Author(s)

Nathan Skene / Combiz Khozoie

See Also

Other clustering and dimensionality reduction: .get_x_most_specific_genes(), .map_celltypes_with_ewce(), cluster_sce(), map_custom_celltypes(), reduce_dims_sce()


combiz/scFlow documentation built on Feb. 25, 2024, 10:25 a.m.