colCollapse: Extract one cell from each row (column) of a matrix-like...

In DelayedMatrixStats: Functions that Apply to Rows and Columns of 'DelayedMatrix' Objects

Description

Extract one cell from each row (column) of a matrix-like object.

Usage

## S4 method for signature 'DelayedMatrix'
colCollapse(x, idxs, cols = NULL, force_block_processing = FALSE, ...)

## S4 method for signature 'DelayedMatrix'
rowCollapse(x, idxs, rows = NULL, force_block_processing = FALSE, ...)

Arguments

x	A NxK DelayedMatrix.
idxs	An index vector with the position to extract. It is recycled to match the number of rows (column)
cols	A vector indicating the subset of rows (and/or columns) to operate over. If NULL, no subsetting is done.
force_block_processing	FALSE (the default) means that a seed-aware, optimised method is used (if available). This can be overridden to use the general block-processing strategy by setting this to TRUE (typically not advised). The block-processing strategy loads one or more (depending on \link[DelayedArray]{getAutoBlockSize}()) columns (colFoo()) or rows (rowFoo()) into memory as an ordinary base::array.
...	Additional arguments passed to specific methods.
rows	A vector indicating the subset of rows (and/or columns) to operate over. If NULL, no subsetting is done.

Details

The S4 methods for x of type matrix, array, or numeric call matrixStats::rowCollapse / matrixStats::colCollapse.

Value

Returns a numeric vector of length N (K).

Author(s)

Peter Hickey

See Also

• matrixStats::rowCollapse() and matrixStats::colCollapse() which are used when the input is a matrix or numeric vector.

Examples

# A DelayedMatrix with a 'matrix' seed
dm_matrix <- DelayedArray(matrix(c(rep(1L, 5),
                                   as.integer((0:4) ^ 2),
                                   seq(-5L, -1L, 1L)),
                                 ncol = 3))
# A DelayedMatrix with a 'HDF5ArraySeed' seed
# NOTE: Requires that the HDF5Array package is installed
library(HDF5Array)
dm_HDF5 <- writeHDF5Array(matrix(c(rep(1L, 5),
                                   as.integer((0:4) ^ 2),
                                   seq(-5L, -1L, 1L)),
                                 ncol = 3))

# Extract the 4th row as a vector
# NOTE: An ordinary vector is returned regardless of the backend of
#       the DelayedMatrix object
colCollapse(dm_matrix, 4)
colCollapse(dm_HDF5, 4)

# Extract the 2nd column as a vector
# NOTE: An ordinary vector is returned regardless of the backend of
#       the DelayedMatrix object
rowCollapse(dm_matrix, 2)
rowCollapse(dm_HDF5, 2)

DelayedMatrixStats documentation built on Feb. 5, 2021, 2:04 a.m.