pcot2

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.13 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see pcot2.

Principal Coordinates and Hotelling's T-Square method

Bioconductor version: 3.13

PCOT2 is a permutation-based method for investigating changes in the activity of multi-gene networks. It utilizes inter-gene correlation information to detect significant alterations in gene network activities. Currently it can be applied to two-sample comparisons.

Author: Sarah Song, Mik Black

Maintainer: Sarah Song <qson003 at stat.auckland.ac.nz>

Citation (from within R, enter citation("pcot2")):

Installation

To install this package, start R (version "4.1") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("pcot2")

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

Documentation


Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DifferentialExpression, GeneExpression, KEGG, Microarray, Network, Software
Version	1.60.0
In Bioconductor since	BioC 1.9 (R-2.4) (17.5 years)
License	GPL (>= 2)
Depends	R (>= 2.0.0), grDevices, Biobase, amap
Imports
System Requirements
URL

Suggests	multtest, hu6800.db, KEGG.db, mvtnorm
Linking To
Enhances
Depends On Me
Imports Me
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Build Report	Build Report

Package Archives

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

Source Package
Windows Binary
macOS 10.13 (High Sierra)
Source Repository	git clone https://git.bioconductor.org/packages/pcot2
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/pcot2
Package Short Url	https://bioconductor.org/packages/pcot2/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.13	Source Archive