Journal Article

PCIT: an R package for weighted gene co-expression networks based on partial correlation and information theory approaches

Nathan S. Watson-Haigh, Haja N. Kadarmideen and Antonio Reverter

in Bioinformatics

Volume 26, issue 3, pages 411-413
Published in print February 2010 | ISSN: 1367-4803
Published online December 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp674
PCIT: an R package for weighted gene co-expression networks based on partial correlation and information theory approaches

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Summary: We make the PCIT algorithm, used for detecting meaningful gene–gene associations in co-expression networks, available as an R package. Automatic detection of a suitable parallel environment is used such that scripts are portable between parallel and non-parallel environments with no modification of the script.

Availability and implementation: Source code and binaries freely available (under GPL-3) for download via CRAN at http://cran.r-project.org/package=PCIT, implemented in R and supported on Linux and MS Windows.

Contact: nathan.watson-haigh@csiro.au

Journal Article.  1980 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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