INDEED
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see INDEED.
An Implementation of Integrated Differential Expression and Differential Network Analysis for Biomarker Candidate Selection
Bioconductor version: 3.9
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 gmail.com>
Maintainer: Zhenzhi Li <zzrickli at gmail.com>, Yiming Zuo <yimingzuo at gmail.com>
citation("INDEED")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("INDEED")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("INDEED")| INDEED R package for cancer biomarker candidate selection | HTML | R Script |
| Reference Manual |
Details
| biocViews | BiologicalQuestion, DifferentialExpression, ImmunoOncology, MassSpectrometry, Metabolomics, ResearchField, Software, StatisticalMethod |
| Version | 1.2.0 |
| In Bioconductor since | BioC 3.8 (R-3.5) (5.5 years) |
| 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) |
| System Requirements | |
| URL | http://github.com/ressomlab/INDEED |
| Bug Reports | http://github.com/ressomlab/INDEED/issues |
See More
| Suggests | knitr (>= 1.19), rmarkdown (>= 1.8), testthat (>= 2.0.0) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | INDEED_1.2.0.tar.gz |
| Windows Binary | INDEED_1.2.0.zip |
| Mac OS X 10.11 (El Capitan) | INDEED_1.2.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/INDEED |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/INDEED |
| Bioc Package Browser | https://code.bioconductor.org/browse/INDEED/ |
| Package Short Url | https://bioconductor.org/packages/INDEED/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |