INDEED: Interactive Visualization of Integrated Differential Expression and Differential Network Analysis for Biomarker Candidate Selection Package

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.

Package details

AuthorYiming Zuo <>, Kian Ghaffari <>, Zhenzhi Li <>
Bioconductor views BiologicalQuestion DifferentialExpression ImmunoOncology MassSpectrometry Metabolomics ResearchField Software StatisticalMethod
MaintainerRessom group <>, Yiming Zuo <>
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
if (!requireNamespace("BiocManager", quietly = TRUE))


Try the INDEED package in your browser

Any scripts or data that you put into this service are public.

INDEED documentation built on Nov. 8, 2020, 11:12 p.m.