pc2mtx: Matches compartment with entries of contact map given in...

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

Description

Compartment vector indices correspond to bins along chromosome.

Usage

pc2mtx(pc, sparse.mtx)

Arguments

pc	numeric, compartment vector or principal component (eigenvector)
sparse.mtx	data.frame, matrix in sparse format containg manadatory fields i and j

Value

data.frame - contact map in sparse format with additional columns for every row (dense matrix cell): compartment.i, compartment.j, compartment

Examples

# make artificial eigenvector --> its length is 12 so it represents artificial chromosome with 12 bins
pc <- c(-0.3,-0.5,0.2,0.3,0.4,0.4,-0.5,0.2,0.1,0.3,-0.9,-0.7)
# make artificial sparse contact map
sparse.mtx <- data.frame(i = c(1,3,5,7,8,9,11), j = c(7,2,1,1,3,10,9), val = c(10,8,3,1,1,2,20))
print(sparse.mtx)
pc2mtx(pc, sparse.mtx)

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