Humanize an R object

Usage

humanize(object, ...)

# S4 method for SummarizedExperiment
humanize(object)

Arguments

object: Object.
...: Additional arguments.

Value

Modified object. Contains human-friendly rownames (e.g. gene symbols instead of stable gene IDs) and colnames (e.g. sample names instead of sample IDs).

Details

This can make dimnames invalid (see make.names()) and should only be called prior to writing files to disk.

Note

Updated 2021-10-21.

Examples

data(RangedSummarizedExperiment, package = "AcidTest")

## SummarizedExperiment ====
object <- RangedSummarizedExperiment
lapply(dimnames(object), head)
#> [[1]]
#> [1] "gene001" "gene002" "gene003" "gene004" "gene005" "gene006"
#> 
#> [[2]]
#> [1] "sample01" "sample02" "sample03" "sample04" "sample05" "sample06"
#> 
x <- humanize(object)
lapply(dimnames(x), head)
#> [[1]]
#> [1] "TSPAN6"   "TNMD"     "DPM1"     "SCYL3"    "C1orf112" "FGR"     
#> 
#> [[2]]
#> [1] "sample01" "sample02" "sample03" "sample04" "sample05" "sample06"
#>