write.edges: Compute and save network edges

In ne1s0n/MTGOsc: MTGO analysis applied to Single Cell data

Compute and save network edges

Description

This function takes a network (in the form of a coexpression matrix) and trims some of the edges using the passed function fun. The resulting network is both returned and saved on disk.

Usage

write.edges(coexpression, outfolder, keep.weights = TRUE,
  overwrite = TRUE, fun = thinning_abs_threshold, ...)

Arguments

coexpression	a coexpression matrix, in long form, as the one returned by write.coexpressionMatrix
outfolder	the data folder where to save the results
keep.weights	boolean. If TRUE arc weights are kept. Defaults to FALSE.
overwrite	boolean. Should an existing edge file be overwritten on disk?
fun	edge filtering function, defaults to thinning_abs_threshold
...	extra arguments are passed to edge filtering function

Value

a trimmed network

ne1s0n/MTGOsc documentation built on April 20, 2022, 9:35 p.m.