pcxn

DOI: 10.18129/B9.bioc.pcxn    

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see pcxn.

Exploring, analyzing and visualizing functions utilizing the pcxnData package

Bioconductor version: 3.13

Discover the correlated pathways/gene sets of a single pathway/gene set or discover correlation relationships among multiple pathways/gene sets. Draw a heatmap or create a network of your query and extract members of each pathway/gene set found in the available collections (MSigDB H hallmark, MSigDB C2 Canonical pathways, MSigDB C5 GO BP and Pathprint).

Author: Sokratis Kariotis, Yered Pita-Juarez, Winston Hide, Wenbin Wei

Maintainer: Sokratis Kariotis <s.kariotis at sheffield.ac.uk>

Installation

To install this package, start R (version "4.1") and enter:

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

BiocManager::install("pcxn")

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("pcxn")

 

PDF	R Script	pcxn
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	ExperimentData, ExpressionData, GEO, Homo_sapiens_Data, MicroarrayData, OneChannelData, PathwayInteractionDatabase, Software
Version	2.14.0
In Bioconductor since	BioC 3.6 (R-3.4) (4 years)
License	MIT + file LICENSE
Depends	R (>= 3.4), pcxnData
Imports	methods, grDevices, utils, pheatmap
LinkingTo
Suggests	igraph, annotate, org.Hs.eg.db
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me	pcxnData
Links To Me
Build Report

Package Archives

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

Source Package	pcxn_2.14.0.tar.gz
Windows Binary	pcxn_2.14.0.zip
macOS 10.13 (High Sierra)	pcxn_2.14.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/pcxn
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/pcxn
Package Short Url	https://bioconductor.org/packages/pcxn/
Package Downloads Report	Download Stats