Retrieve the default assay name

Returns the name of the first assay in the PhysioExperiment object, which is treated as the default assay for operations that do not specify an assay explicitly.

Usage

defaultAssay(x)

Arguments

x

A PhysioExperiment instance.

Value

Character scalar naming the first assay, or NA_character_ when no assays are present.

References

Huber, W., et al. (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115-121. doi:10.1038/nmeth.3252

Morgan, M., et al. (2022). "S4Vectors: Foundation of vector-like and list-like containers in Bioconductor." R package.

See also

PhysioExperiment for the constructor, samplingRate for the sampling rate accessor, timeIndex for time point vector

Examples

pe <- PhysioExperiment(
  assays = list(raw = matrix(rnorm(100), nrow = 10), filtered = matrix(0, 10, 10)),
  samplingRate = 250
)
defaultAssay(pe)
#> [1] "raw"