restore_unmappable_mtx: Restores unmappable regions (all zeros columns and rows) in...

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

Description

Restores unmappable regions (all zeros columns and rows) in dense matrix.

Usage

restore_unmappable_mtx(
  dense.mtx.mappable,
  idx.rows,
  idx.cols = NULL,
  empty.elem = NA
)

Arguments

dense.mtx.mappable	numeric matrix
idx.rows	integer vector, row indices of 0's elements in initial matrix (before rows removal) - the one which is to be restored
idx.cols	integer vector, column indices of 0's elements in initial matrix (before columns removal) - the one which is to be restored, by default it is equal to idx.rows
empty.elem	numeric or NA how to fill missing (restored) cells

Value

numeric matrix in dense format

Examples

# construct matrix with 0's row 5,7,8 and 0's columns 2,4
m <- matrix(1:32, ncol = 4); m[c(5,7,8),] <- 0; m[,c(2,4)] <- 0
l <- remove_unmappable(mtx)
restore_unmappable_mtx(l[["matrix"]], l[["indices.rows"]], idx.cols = l[["indices.cols"]])
restore_unmappable_mtx(l[["matrix"]], l[["indices.rows"]], idx.cols = l[["indices.cols"]], empty.elem = 0)

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