aggGroupExpression: Get summary of group expression in Seurat object

In NMikolajewicz/scMiko: scRNAseq analysis functions. Developed using Seurat framework.

Get summary of group expression in Seurat object

Description

Get summary group expression in Seurat object. Can include mean, median, fraction (of expressing cells), sd, or cv. Calls scMiko::avgGroupExpression().

Usage

aggGroupExpression(
  so,
  which.data = "data",
  which.assay = DefaultAssay(so),
  which.center = "mean",
  which.group = "seurat_clusters",
  which.features = NULL,
  do.parallel = F,
  verbose = T
)

Arguments

so	Seurat Object
which.data	Character specfying which data slot. Default is "data".
which.assay	Character specigin which assay to use.
which.center	Character indicating which summary measure to use. Must be one of "mean", "median", "fraction", "sum", "sd", or "cv". If unspecified, default is "mean".
which.group	Character specfying group field in Seurat metadata. Default is "seurat_clusters".
do.parallel	Logical specifying whether to perform computations in parallel. Default is F. Uses future.apply package.

Value

data.frame (gene rows, group columns)

Author(s)

Nicholas Mikolajewicz

NMikolajewicz/scMiko documentation built on June 28, 2023, 1:41 p.m.