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Accessor method for rowData from subsets in ExperimentSubset objects

Source: R/allGenerics.R, R/SubsetRangedSummarizedExperiment.R, R/SubsetSingleCellExperiment.R, and 3 more
subsetRowData.Rd

Get rowData from a subset.

Set rowData to a subset.

Usage

subsetRowData(x, subsetName, parentRowData)

subsetRowData(x, subsetName) <- value

# S4 method for class 'SubsetRangedSummarizedExperiment'
subsetRowData(x, subsetName, parentRowData)

# S4 method for class 'SubsetRangedSummarizedExperiment'
subsetRowData(x, subsetName) <- value

# S4 method for class 'SubsetSingleCellExperiment'
subsetRowData(x, subsetName, parentRowData)

# S4 method for class 'SubsetSingleCellExperiment'
subsetRowData(x, subsetName) <- value

# S4 method for class 'SubsetSummarizedExperiment'
subsetRowData(x, subsetName) <- value

# S4 method for class 'SubsetSummarizedExperiment'
subsetRowData(x, subsetName, parentRowData)

# S4 method for class 'SubsetSpatialExperiment'
subsetRowData(x, subsetName, parentRowData)

# S4 method for class 'SubsetSpatialExperiment'
subsetRowData(x, subsetName) <- value

# S4 method for class 'SubsetTreeSummarizedExperiment'
subsetRowData(x, subsetName, parentRowData)

Arguments

x

ExperimentSubset Input ExperimentSubset object.

subsetName

character(1) Name of the subset to set rowData to.

parentRowData

logical(1) Logical value indicating if parent rowData should be combined or not. A subset's own column hides the main object's column of the same name, with a message if their values differ. Default FALSE.

value

Input DataFrame to store; a data.frame is converted to one, and NULL removes the subset's own rowData columns. Its rownames must be NULL or the subset's row names, in the same order; other rownames are an error, since rows are matched by position. To store a table with other rownames, such as gene IDs for rows named by symbol, put its rows in the subset's order and set rownames(value) <- NULL first.

Value

The rowData from input object.

Input object with rowData stored.

Examples

data(sce_chcl, package = "scds")
es <- ExperimentSubset(sce_chcl)
es <- createSubset(es,
"subset1",
rows = c(10,11,50,56,98,99,102,105,109, 200),
cols = c(20,21,40,45,90,99,100,123,166,299),
parentAssay = "counts")
subsetRowData(es, "subset1")
#> DataFrame with 10 rows and 0 columns