countsBySubject {aggregateBioVar}R Documentation

Gene-by-subject count matrix

Description

Convert gene-by-cell count matrix to gene-by-subject count matrix. Row sums are calculated for each feature (i.e. gene) across cells by subject.

Usage

countsBySubject(scExp, subjectVar)

Arguments

scExp

SingleCellExperiment object containing (at minimum) gene counts and column metadata describing sample identifiers and cell types.

subjectVar

Metadata column name assigning biological sample identity to aggregate within-subject feature counts.

Value

S4 DataFrame of gene-by-subject count sums.

See Also

scSubjects for subjects values.

Examples

## Return cell count matrix aggregated by subject.
countsBySubject(scExp=small_airway, subjectVar="orig.ident")


[Package aggregateBioVar version 1.2.0 Index]