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cdgnet-package's Introduction

CDGnet

Package repository for the CDGnet application. CDGnet is described in the following manuscript: https://ascopubs.org/doi/full/10.1200/CCI.19.00097

Installation

Install from github using the remotes package:

remotes::install_github('SiminaB/cdgnet-package', dependencies=TRUE)

Preparation

CDGnet uses pathway information that needs to be download and processed before using the application. This only needs to be done once per installation.

library(CDGnet)
CDGnet::download_and_process_KEGG()

Usage

CDGnet is a shiny app. To run the app we provide a helper function

runCDGnet()

Once the app is running a molecular profile can be uploaded from a CSV file as directed in the app.

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