getGenes: Returns the names of all genes of a target object.

In dtm2451/dittoSeq: User Friendly Single-Cell and Bulk RNA Sequencing Visualization

Returns the names of all genes of a target object.

Description

Returns the names of all genes of a target object.

Usage

getGenes(object, assay = .default_assay(object), swap.rownames = NULL)

Arguments

object	A Seurat, SingleCellExperiment, or SummarizedExperiment object.
assay	Single string or integer that sets which set of seq data inside the object to check.
swap.rownames	optionally named string or string vector. For SummarizedExperiment or SingleCellExperiment objects, its value(s) specifies the column name of rowData(object) to be used to identify features instead of rownames(object). When targeting multiple modalities (alternative experiments), names can be used to specify which level / alternative experiment (use 'main' for the top-level) individual values should be used for. See GeneTargeting for more specifics and examples.

Value

A string vector, returns the names of all genes of the object for the requested assay.

Author(s)

Daniel Bunis

See Also

isGene for returning all genes in an object

gene for obtaining the expression data of genes

Examples

example(importDittoBulk, echo = FALSE)
getGenes(object = myRNA, assay = "counts")

# To see all genes of an object for the default assay that dittoSeq would use
# leave out the assay input
getGenes(myRNA)

# Seurat
# pbmc <- Seurat::pbmc_small
# # To see all genes of an object of a particular assay
# getGenes(pbmc, assay = "RNA")

dtm2451/dittoSeq documentation built on May 5, 2024, 11:19 a.m.