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pcxn

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This is the development version of pcxn; for the stable release version, see pcxn.

Exploring, analyzing and visualizing functions utilizing the pcxnData package


Bioconductor version: Development (3.19)

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>

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")
pcxn PDF R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews ExperimentData, ExpressionData, GEO, Homo_sapiens_Data, MicroarrayData, OneChannelData, PathwayInteractionDatabase, Software
Version 2.25.1
In Bioconductor since BioC 3.6 (R-3.4) (6.5 years)
License MIT + file LICENSE
Depends R (>= 3.4), pcxnData
Imports methods, grDevices, utils, pheatmap
System Requirements
URL
See More
Suggests igraph, annotate, org.Hs.eg.db
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me pcxnData
Links To Me
Build Report Build Report

Package Archives

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

Source Package pcxn_2.25.1.tar.gz
Windows Binary pcxn_2.25.1.zip
macOS Binary (x86_64) pcxn_2.25.1.tgz
macOS Binary (arm64)
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