Creates an EnrichmentSE from a list of normalizedMatrix objects

Usage

ml2ESE(ml, rowRanges, assayName = "input", addScore = FALSE, ...)

Arguments

ml: A named list of normalizedMatrix objects with corresponding rows.
rowRanges: An optional GRanges object corresponding to the rows of each object of `ml`.
assayName: The name of the assay, defaults to 'input'
addScore: Logical; whether to add an enriched_score assay.
...: Passed to `SummarizedExperiment()`

Examples

# for an example we first need a list of signal matrices. To this end, 
# we first fetch the path to the example bigwig file:
bw <- system.file("extdata/example_atac.bw", package="epiwraps")
# we load example regions:
regions <- rtracklayer::import(system.file("extdata/example_peaks.bed", 
                                           package="epiwraps"))
# we obtain the matrix of the signal around the regions, indicating that we
# want the output as a list of signal matrices:
m <- signal2Matrix(bw, regions, ret="list")
#> Reading /home/runner/work/_temp/Library/epiwraps/extdata/example_atac.bw
# we can then transform this into an EnrichmentSE object:
m <- ml2ESE(m)
#> Error in ml2ESE(m): argument "rowRanges" is missing, with no default