ssc.average.cell: calcualte the average expression of cells of each group

In Japrin/sscVis: simpler single cell RNAseq data Visualization

calcualte the average expression of cells of each group

Description

calcualte the average expression of cells of each group

Usage

ssc.average.cell(
  obj,
  assay.name = "exprs",
  gene = NULL,
  column = "majorCluster",
  ncell.downsample = NULL,
  avg = "mean",
  ret.type = "data.melt",
  do.parallel = F
)

Arguments

obj	object of singleCellExperiment class
assay.name	character; which assay (default: "exprs")
gene	character; only consider the specified gnees (default: NULL)
column	character; columns in colData(obj) to be averaged. (default: "majorCluster")
ncell.downsample	integer; for each group, number of cells downsample to. (default: NULL)
avg	character; average method. can be one of "mean", "diff", "zscore" . (default: "mean")
ret.type	character; return type. can be one of "data.melt", "data.cast", "data.mtx". (default: "data.melt")
do.parallel	logical; parallel of ldply. (default: FALSE)

Details

multiple average methods are implemented

Japrin/sscVis documentation built on March 5, 2025, 10:23 a.m.