computeValueSubclusters-methods: Compute expression statistics of each gene in each...

In edroaldo/fusca: Framework for Unified Single-Cell Analysis

Compute expression statistics of each gene in each population.

Description

Compute maximum, median or mean expression of each gene in each population.

Usage

computeValueSubclusters(
  object,
  assay.type = "RNA",
  genelist,
  column = "population",
  subcluster.column = "Subpopulation",
  clusters,
  fun = "max"
)

## S4 method for signature 'CellRouter'
computeValueSubclusters(
  object,
  assay.type = "RNA",
  genelist,
  column = "population",
  subcluster.column = "Subpopulation",
  clusters,
  fun = "max"
)

Arguments

object	CellRouter object.
assay.type	character; the type of data to use.
genelist	character vector; genes to use in the analysis.
column	character; column in the metadata table to group cells for differential expression. For example, if 'population' is specified, population-specific gene signatures will be identified.
subcluster.column	character; the name of the column where the subclustering information will be stored.
clusters	character; selected clusters.
fun	character; statistical function to summary the gene expression.

Value

list; the statistics of the expressed genes in the population (p column), not in the population (np), and the percentage (percent).

edroaldo/fusca documentation built on March 1, 2023, 1:43 p.m.