get_nets: Network visualization

In lubianat/fcoex: FCBF-based Co-Expression Networks for Single Cells

Description

Creates network visualizations based on the adjacency matrix obtained with the find_cbf_modules method

Usage

get_nets(fc, n = 10, min_elements = 5, ...)

## S4 method for signature 'fcoex'
get_nets(fc, n = 10, min_elements = 5, ...)

Arguments

fc	Object of class fcoex.
n	number of nodes to label
min_elements	Minimum number of elements in a module for it to be plotted. Defaults to 5.
...	Optional parameters.

Value

Object of class fcoex with profile plots

Examples

library(SingleCellExperiment) 
data("mini_pbmc3k")
targets <- colData(mini_pbmc3k)$clusters
exprs <- as.data.frame(assay(mini_pbmc3k, "logcounts"))
fc <- new_fcoex(exprs, targets)
fc <- discretize(fc)
fc <- find_cbf_modules(fc)
fc <- get_nets(fc)

lubianat/fcoex documentation built on Aug. 6, 2020, 3:39 a.m.