This is the development version of INDEED; for the stable release version, see INDEED.
Interactive Visualization of Integrated Differential Expression and Differential Network Analysis for Biomarker Candidate Selection PackageBioconductor version: Development (3.22)
An R package for integrated differential expression and differential network analysis based on omic data for cancer biomarker discovery. Both correlation and partial correlation can be used to generate differential network to aid the traditional differential expression analysis to identify changes between biomolecules on both their expression and pairwise association levels. A detailed description of the methodology has been published in Methods journal (PMID: 27592383). An interactive visualization feature allows for the exploration and selection of candidate biomarkers.
Author: Yiming Zuo <yimingzuo at gmail.com>, Kian Ghaffari <kg.ghaffari at gmail.com>, Zhenzhi Li <zzrickli at gmail.com>
Maintainer: Ressom group <hwr at georgetown.edu>, Yiming Zuo <yimingzuo at gmail.com>
Citation (from within R, entercitation("INDEED")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("INDEED")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("INDEED")Follow Installation instructions to use this package in your R session.
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