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; Antonio Reverter

doi:10.1093/bioinformatics/btp674

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, Antonio Reverter

Research output: Contribution to journal › Article › peer-review

77 Citations (Scopus)

Abstract

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.rproject. org/package=PCIT, implemented in R and supported on Linux and MS Windows. Contact: [email protected]

Original language	English
Pages (from-to)	411-413
Number of pages	3
Journal	Bioinformatics
Volume	26
Issue number	3
DOIs	https://doi.org/10.1093/bioinformatics/btp674
Publication status	Published or Issued - 9 Dec 2009
Externally published	Yes

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

Access to Document

10.1093/bioinformatics/btp674

Cite this

@article{d77c2fcfbb04441c8714dd0f41434452,

title = "PCIT: An R package for weighted gene co-expression networks based on partial correlation and information theory approaches",

abstract = "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.rproject. org/package=PCIT, implemented in R and supported on Linux and MS Windows. Contact: [email protected]",

author = "Watson-Haigh, {Nathan S.} and Kadarmideen, {Haja N.} and Antonio Reverter",

year = "2009",

month = dec,

day = "9",

doi = "10.1093/bioinformatics/btp674",

language = "English",

volume = "26",

pages = "411--413",

journal = "Bioinformatics",

issn = "1367-4803",

publisher = "Oxford University Press",

number = "3",

}

TY - JOUR

T1 - PCIT

T2 - An R package for weighted gene co-expression networks based on partial correlation and information theory approaches

AU - Watson-Haigh, Nathan S.

AU - Kadarmideen, Haja N.

AU - Reverter, Antonio

PY - 2009/12/9

Y1 - 2009/12/9

N2 - 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.rproject. org/package=PCIT, implemented in R and supported on Linux and MS Windows. Contact: [email protected]

AB - 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.rproject. org/package=PCIT, implemented in R and supported on Linux and MS Windows. Contact: [email protected]

UR - http://www.scopus.com/inward/record.url?scp=77949500391&partnerID=8YFLogxK

U2 - 10.1093/bioinformatics/btp674

DO - 10.1093/bioinformatics/btp674

M3 - Article

C2 - 20007253

AN - SCOPUS:77949500391

SN - 1367-4803

VL - 26

SP - 411

EP - 413

JO - Bioinformatics

JF - Bioinformatics

IS - 3

ER -

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

Abstract

ASJC Scopus subject areas

Access to Document

Other files and links

Cite this