DOI: 10.18129/B9.bioc.pcot2    

This is the development version of pcot2; for the stable release version, see pcot2.

Principal Coordinates and Hotelling's T-Square method

Bioconductor version: Development (3.9)

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")):


To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
BiocManager::install("pcot2", version = "3.9")

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:



PDF R Script PCOT2 Vignette
PDF   Reference Manual


biocViews DifferentialExpression, GeneExpression, KEGG, Microarray, Network, Software
Version 1.51.0
In Bioconductor since BioC 1.9 (R-2.4) (12.5 years)
License GPL (>= 2)
Depends R (>= 2.0.0), grDevices, Biobase, amap
Suggests multtest, hu6800.db, KEGG.db, mvtnorm
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_1.51.0.tar.gz
Windows Binary pcot2_1.51.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) pcot2_1.51.0.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/
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