Update object
Usage
updateObject(object, ..., verbose = FALSE)
# S4 method for bcbioSingleCell
updateObject(object, ..., verbose = FALSE)Arguments
- object
Object.
- ...
Additional arguments.
- verbose
logical(1). Run the function with verbose output.
Examples
data(bcb)
## bcbioSingleCell ====
updateObject(bcb)
#> bcbioSingleCell 0.7.1
#> uploadDir: /Users/mike/git/monorepo/r-packages/bcbioSingleCell/inst/extdata/indrops
#> dates(2): 2018-01-01 2023-10-05
#> level: genes
#> sampleMetadataFile: ../inst/extdata/indrops/metadata.csv
#> organism: Homo sapiens
#> ensemblRelease: 90
#> interestingGroups: sampleName
#> filtered: FALSE
#> class: SingleCellExperiment
#> dim: 50 100
#> metadata(28): allSamples bcbioCommandsLog ... yaml originalVersion
#> assays(1): counts
#> rownames(50): ENSG00000071082 ENSG00000100316 ... ENSG00000269028
#> ENSG00000282105
#> rowData names(9): broadClass description ... ncbiGeneId seqCoordSystem
#> colnames(100): AAACACTA_CTTCGATT AAACTACA_CCACATTA ...
#> TGGGAATT_ATATAGGA TGTTATCA_ACGCAGAG
#> colData names(15): aggregate description ... sampleName sequence
#> reducedDimNames(0):
#> mainExpName: NULL
#> altExpNames(0):
## Example that depends on remote file.
## > x <- import(
## > con = file.path(
## > bcbioSingleCellTestsUrl,
## > "bcbioSingleCell_0.1.0.rds"
## > )
## > )
## > x <- updateObject(x)
## > x