DOI: 10.18129/B9.bioc.INDEED    

An Implementation of Integrated Differential Expression and Differential Network Analysis for Biomarker Candidate Selection

Bioconductor version: Release (3.8)

An Implementation of Integrated Differential Expression and Differential Network Analysis of Omic Data. The differential network is obtained based on partial correlation or correlation.

Author: Zhenzhi Li <zzrickli at>

Maintainer: Zhenzhi Li <zzrickli at>, Yiming Zuo <yimingzuo at>

Citation (from within R, enter citation("INDEED")):


To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
BiocManager::install("INDEED", version = "3.8")

For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script INDEED R package for cancer biomarker candidate selection
PDF   Reference Manual


biocViews BiologicalQuestion, DifferentialExpression, ImmunoOncology, MassSpectrometry, Metabolomics, ResearchField, Software, StatisticalMethod
Version 1.0.1
License Artistic-2.0
Depends R (>= 3.5), glasso (>= 1.8)
Imports utils (>= 3.3.1), stats (>= 3.3.1), graphics (>= 3.3.1), devtools (>= 1.13.0)
Suggests knitr (>= 1.19), rmarkdown (>= 1.8), testthat (>= 2.0.0)
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package INDEED_1.0.1.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) INDEED_1.0.1.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Package Short Url
Package Downloads Report Download Stats
Old Source Packages for BioC 3.8 Source Archive

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: