pcxn

This package is for version 3.18 of Bioconductor; for the stable, up-to-date release version, see pcxn.

Exploring, analyzing and visualizing functions utilizing the pcxnData package

Bioconductor version: 3.18

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 "4.3") and enter:


if (!require("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")

pcxn PDF R Script

Reference Manual PDF

NEWS Text

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews ExperimentData, ExpressionData, GEO, Homo_sapiens_Data, MicroarrayData, OneChannelData, PathwayInteractionDatabase, Software

Version 2.24.0

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

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_2.24.0.tar.gz

Windows Binary pcxn_2.24.0.zip

macOS Binary (x86_64) pcxn_2.24.0.tgz

macOS Binary (arm64) pcxn_2.24.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/pcxn

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/pcxn

Bioc Package Browser https://code.bioconductor.org/browse/pcxn/

Package Short Url https://bioconductor.org/packages/pcxn/

Package Downloads Report Download Stats