Principal Coordinates and Hotelling's T-Square method

Bioconductor version: 2.9

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>

To install this package, start R and enter:


To cite this package in a publication, start R and enter:



PDF HowToUseGeneLocator.pdf
PDF R Script PCOT2 Vignette
PDF   Reference Manual


biocViews Microarray, DifferentialExpression
Depends R (>= 2.0.0), grDevices, Biobase, amap
Suggests multtest, hu6800.db, KEGG.db, mvtnorm
System Requirements
License GPL (>= 2)
Depends On Me
Imports Me
Suggests Me
Version 1.22.0
Since Bioconductor 1.9 (R-2.4)

Package Downloads

Package Source pcot2_1.22.0.tar.gz
Windows Binary pcot2_1.22.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary pcot2_1.22.0.tgz
Package Downloads Report Download Stats

Workflows »

Common Bioconductor workflows include:


Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center