dense2sparse: Converts matrix given in dense format to sparse format data...

In rz6/CopulaHiC: Hi-C differential analysis via dependency modelling of chromatin interactions with generalized linear models

Description

This function only keeps non-zero cells. In case given dense matix is symmetric dense2sparse will return upper triangular part of the matrix (i.e. where rows <= columns)

Usage

dense2sparse(mtx, add.diagonal = TRUE, name = NULL)

Arguments

mtx	matrix in dense format
add.diagonal	logical, if true an additional column indicating diagonal of each cell will be appended to resulting data frame
name	character, additional argument, if specified column with name will be appended to resulting data frame

Value

data.frame with columns c("i","j","val") and optionally c("diagonal","name") columns; every row of resulting dataframe corresponds to cell in given dense matrix with i-th row, j-th column and value val

Examples

dense2sparse(matrix(1:24, ncol = 3))
dense2sparse(matrix(1:24, ncol = 3), name = "some.matrix")
dense2sparse(matrix(1:24, ncol = 3), add.diagonal = FALSE)
# symmetric matrix
mtx.sym <- matrix(1:25, ncol = 5)
mtx.sym <- mtx.sym + t(mtx.sym)
dense2sparse(matrix(mtx.sym))

rz6/CopulaHiC documentation built on Dec. 31, 2019, 9:19 a.m.