clusterExprsSummaryMatrix: Construct a matrix of expression summary values per cluster.

In cjscholz/ClEvaR: Cluster Evaluation in R

Description

Construct a matrix of expression summary values per cluster.

Usage

clusterExprsSummaryMatrix(FGDEGtab, FGexprs, FGassign, Q = 0.5,
  cellColumn = "cell_id", geneColumn = "entrez_id",
  clusterColumn = "cluster_id")

Arguments

FGDEGtab	The raw FASTGenomics Differentially Expressed Gene table, e.g. the output from FASTGenomics calc_de_genes_nonparametric.
FGexprs	A sparse Matrix of expression values in cells x genes format.
FGassign	data.frame with cluster assignments for cells.
Q	Quantile used for expression value summary; defaults to 0.5, i.e. the median.
cellColumn	Column name for cell name; defaults to "cell_id".
geneColumn	Column name for gene ID; defaults to "entrez_id".
clusterColumn	Column name for cluster assignment; defaults to "cluster_id".

Value

A gene x cluster matrix of summarized cluster expression values.

cjscholz/ClEvaR documentation built on May 23, 2019, 7:02 p.m.