PCAN

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see PCAN.

Phenotype Consensus ANalysis (PCAN)


Bioconductor version: 3.9

Phenotypes comparison based on a pathway consensus approach. Assess the relationship between candidate genes and a set of phenotypes based on additional genes related to the candidate (e.g. Pathways or network neighbors).

Author: Matthew Page and Patrice Godard

Maintainer: Matthew Page <matthew.page at ucb.com> and Patrice Godard <patrice.godard at gmail.com>

Citation (from within R, enter citation("PCAN")):

Installation

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


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("PCAN")

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("PCAN")
Assessing gene relevance for a set of phenotypes HTML R Script
Reference Manual PDF

Details

biocViews Annotation, FunctionalPrediction, Genetics, Network, Pathways, Sequencing, Software, VariantAnnotation
Version 1.12.0
In Bioconductor since BioC 3.3 (R-3.3) (8 years)
License CC BY-NC-ND 4.0
Depends R (>= 3.3), BiocParallel
Imports grDevices, stats
System Requirements
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Suggests BiocStyle, knitr, rmarkdown, reactome.db, STRINGdb
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package PCAN_1.12.0.tar.gz
Windows Binary PCAN_1.12.0.zip
Mac OS X 10.11 (El Capitan) PCAN_1.12.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/PCAN
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/PCAN
Bioc Package Browser https://code.bioconductor.org/browse/PCAN/
Package Short Url https://bioconductor.org/packages/PCAN/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive