BioCor

DOI: 10.18129/B9.bioc.BioCor  

Functional similarities

Bioconductor version: Release (3.16)

Calculates functional similarities based on the pathways described on KEGG and REACTOME or in gene sets. These similarities can be calculated for pathways or gene sets, genes, or clusters and combined with other similarities. They can be used to improve networks, gene selection, testing relationships...

Author: Lluís Revilla Sancho [aut, cre] , Pau Sancho-Bru [ths] , Juan José Salvatella Lozano [ths]

Maintainer: Lluís Revilla Sancho <lluis.revilla at gmail.com>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("BioCor")

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("BioCor")

 

HTML	R Script	About BioCor
HTML	R Script	Advanced usage of BioCor
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Clustering, GeneExpression, Network, NetworkEnrichment, Pathways, Software, StatisticalMethod, SystemsBiology
Version	1.22.0
In Bioconductor since	BioC 3.5 (R-3.4) (6 years)
License	MIT + file LICENSE
Depends	R (>= 3.4.0)
Imports	BiocParallel, GSEABase, Matrix, methods
LinkingTo
Suggests	airway, BiocStyle, boot, DESeq2, GOSemSim, Hmisc, knitr (>= 1.35), org.Hs.eg.db, reactome.db, rmarkdown, spelling, targetscan.Hs.eg.db, testthat, WGCNA
SystemRequirements
Enhances
URL	https://bioconductor.org/packages/BioCor https://llrs.github.io/BioCor/
BugReports	https://github.com/llrs/BioCor/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	BioCor_1.22.0.tar.gz
Windows Binary	BioCor_1.22.0.zip
macOS Binary (x86_64)	BioCor_1.22.0.tgz
macOS Binary (arm64)	BioCor_1.22.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/BioCor
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/BioCor
Bioc Package Browser	https://code.bioconductor.org/browse/BioCor/
Package Short Url	https://bioconductor.org/packages/BioCor/
Package Downloads Report	Download Stats