View_diffNetworks: Interactive visualisation of differential networks
In multiDEGGs: Multi-Omic Differentially Expressed Gene-Gene Pairs

View_diffNetworks

R Documentation

Interactive visualisation of differential networks

Description

Explore differential networks and interactively select regression and box plots

Usage

View_diffNetworks(deggs_object, legend.arrow.width = 0.35, stepY_legend = 55)

Arguments

`deggs_object`	an object of class `deggs` generated by `get_diffNetworks`
`legend.arrow.width`	width of the arrow used in the network legend. Default is 0.35. As the number of assayData matrices increases this parameter must be accordingly increased to avoid graphical errors in the legend.
`stepY_legend`	vertical space between legend arrows. It is used together with `legend.arrow.width` to adjust the legend space in case of graphical errors. Default is 55.

Value

a shiny interface showing networks with selectable nodes and links

Examples

data("synthetic_metadata")
data("synthetic_rnaseqData")
data("synthetic_proteomicData")
data("synthetic_OlinkData")
assayData_list <- list("RNAseq" = synthetic_rnaseqData,
                       "Proteomics" = synthetic_proteomicData,
                       "Olink" = synthetic_OlinkData)
deggs_object <- get_diffNetworks(assayData = assayData_list,
                                 metadata = synthetic_metadata,
                                 category_variable = "response",
                                 regression_method = "lm",
                                 verbose = FALSE,
                                 show_progressBar = FALSE,
                                 cores = 1)
# the below function runs a shiny app, so can't be run during R CMD check                                  
if(interactive()){
View_diffNetworks(deggs_object)  
}

multiDEGGs documentation built on June 8, 2025, 1:19 p.m.