rowAvgsPerColSet: Calculates for each row (column) a summary statistic for...

In Bioconductor/MatrixGenerics: S4 Generic Summary Statistic Functions that Operate on Matrix-Like Objects

Calculates for each row (column) a summary statistic for equally sized subsets of columns (rows)

Description

Calculates for each row (column) a summary statistic for equally sized subsets of columns (rows).

Usage

rowAvgsPerColSet(X, W = NULL, rows = NULL, S, FUN = rowMeans, ...,
  na.rm = NA, tFUN = FALSE)

## S4 method for signature 'matrix_OR_array_OR_table_OR_numeric'
rowAvgsPerColSet(X, W = NULL,
  rows = NULL, S, FUN = rowMeans, ..., na.rm = NA, tFUN = FALSE)

## S4 method for signature 'ANY'
rowAvgsPerColSet(X, W = NULL, rows = NULL, S,
  FUN = rowMeans, ..., na.rm = NA, tFUN = FALSE)

colAvgsPerRowSet(X, W = NULL, cols = NULL, S, FUN = colMeans, ...,
  na.rm = NA, tFUN = FALSE)

## S4 method for signature 'matrix_OR_array_OR_table_OR_numeric'
colAvgsPerRowSet(X, W = NULL,
  cols = NULL, S, FUN = colMeans, ..., na.rm = NA, tFUN = FALSE)

## S4 method for signature 'ANY'
colAvgsPerRowSet(X, W = NULL, cols = NULL, S,
  FUN = colMeans, ..., na.rm = NA, tFUN = FALSE)

Arguments

X	An NxM matrix-like object.
W	An optional numeric NxM matrix of weights.
rows, cols	A vector indicating the subset (and/or columns) to operate over. If NULL, no subsetting is done.
S	An integer KxJ matrix that specifying the J subsets. Each column hold K column (row) indices for the corresponding subset. The range of values is [1, M] ([1,N]).
FUN	A row-by-row (column-by-column) summary statistic function. It is applied to to each column (row) subset of X that is specified by S.
...	Additional arguments passed to FUN.
na.rm	(logical) Argument passed to FUN() as na.rm = na.rm. If NA (default), then na.rm = TRUE is used if X or S holds missing values, otherwise na.rm = FALSE.
tFUN	If TRUE, X is transposed before it is passed to FUN.

Details

The S4 methods for x of type matrix, array, table, or numeric call matrixStats::rowAvgsPerColSet / matrixStats::colAvgsPerRowSet.

Value

Returns a numeric JxN (MxJ) matrix.

See Also

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

Examples

  mat <- matrix(rnorm(20), nrow = 5, ncol = 4)
  mat[2, 1] <- NA
  mat[3, 3] <- Inf
  mat[4, 1] <- 0
  
  print(mat)
  
  S <- matrix(1:ncol(mat), ncol = 2)
  print(S)
  
  rowAvgsPerColSet(mat, S = S, FUN = rowMeans)
  rowAvgsPerColSet(mat, S = S, FUN = rowVars)

Bioconductor/MatrixGenerics documentation built on Nov. 2, 2024, 4:13 a.m.