README.md

In richrr/TransNetDemo: An Introduction to Transkingdom Network Analysis

TransNetDemo

R package for an introduction to transkingdom network analysis

install.packages("devtools")

library(devtools)

Version of this package made for R < 4.0 is no longer supported.

Please update to R version 4.1.2 (2021-11-01) -- "Bird Hippie"

install_github("cran/ProNet")

install_github("richrr/TransNetDemo")

Feb 14 2022: If the above does not work, please try the following: - download https://github.com/richrr/TransNetDemo/archive/refs/heads/master.zip - unzip - Delete the line with ProNet (if it exists) and save the file “DESCRIPTION”

devtools::install("~/Desktop/TransNetDemo-master/")

• download https://github.com/cran/ProNet/archive/refs/heads/master.zip
• unzip

  devtools::install("~/Desktop/ProNet-master/")

library(TransNetDemo) library(ProNet)

July 1 2021: Since ProNet is no longer available on CRAN, please follow the below steps to install TransNetDemo:

• Download zipped code folder from https://github.com/richrr/TransNetDemo and unzip, place in the user’s local home folder
• Point to the file “DESCRIPTION” and Ctrl + ”open with” a text editor
• Delete the line with ProNet and save the file “DESCRIPTION”
• In R 4.0, install TransNetDemo with devtools:

  devtools::install("/path to TransNetDemo-master/")

You can comment the line "Identify_subnetworks(outNetwork)" and use Cytoscape plugin to identify them using MCODE or InfoMap.

Comment: - Remotes: AckerDWM/gg3D - This line in DESCRIPTION tells R that gg3D is on github in AckerDWM/gg3D - This tells you how to include data in your package: https://r-pkgs.org/data.html

richrr/TransNetDemo documentation built on Feb. 21, 2022, 8:49 a.m.