feature_annotation_scExp {ChromSCape}R Documentation

Add gene annotations to features

Description

Add gene annotations to features

Usage

feature_annotation_scExp(scExp, ref = "hg38", reference_annotation = NULL)

Arguments

scExp

A SingleCellExperiment object.

ref

Reference genome. Either 'hg38' or 'mm10'. ('hg38')

reference_annotation

A data.frame containing gene (or else) annotation with genomic coordinates.

Value

A SingleCellExperiment object with annotated rowData.

Examples

raw <- create_scDataset_raw()
scExp = create_scExp(raw$mat, raw$annot)
scExp = feature_annotation_scExp(scExp)
head(SummarizedExperiment::rowRanges(scExp))

# Mouse
raw = create_scDataset_raw(ref = "mm10")
scExp = create_scExp(raw$mat, raw$annot)
scExp = feature_annotation_scExp(scExp,ref="mm10")
head(SummarizedExperiment::rowRanges(scExp))

[Package ChromSCape version 1.3.22 Index]