pcot2

DOI: 10.18129/B9.bioc.pcot2    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see pcot2.

Principal Coordinates and Hotelling's T-Square method

Bioconductor version: 3.8

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>

Installation

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

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("pcot2")

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("pcot2")

 

PDF	R Script	PCOT2 Vignette
PDF		Reference Manual

Details

biocViews	DifferentialExpression, GeneExpression, KEGG, Microarray, Network, Software
Version	1.50.0
In Bioconductor since	BioC 1.9 (R-2.4) (12.5 years)
License	GPL (>= 2)
Depends	R (>= 2.0.0), grDevices, Biobase, amap
Imports
LinkingTo
Suggests	multtest, hu6800.db, KEGG.db, mvtnorm
SystemRequirements
Enhances
URL
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	pcot2_1.50.0.tar.gz
Windows Binary	pcot2_1.50.0.zip
Mac OS X 10.11 (El Capitan)	pcot2_1.50.0.tgz
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	http://bioconductor.org/packages/pcot2/
Package Downloads Report	Download Stats