cbaf

DOI: 10.18129/B9.bioc.cbaf  

Automated functions for comparing various omic data from cbioportal.org

Bioconductor version: Release (3.16)

This package contains functions that allow analysing and comparing omic data across various cancers/cancer subgroups easily. So far, it is compatible with RNA-seq, microRNA-seq, microarray and methylation datasets that are stored on cbioportal.org.

Author: Arman Shahrisa [aut, cre, cph], Maryam Tahmasebi Birgani [aut]

Maintainer: Arman Shahrisa <shahrisa.arman at hotmail.com>

Installation

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

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

BiocManager::install("cbaf")

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("cbaf")

 

HTML	R Script	cbaf
PDF		Reference Manual
Text		NEWS

Details

biocViews	AssayDomain, BiomedicalInformatics, ComparativeGenomics, DNAMethylation, Epigenetics, GeneExpression, Genetics, Microarray, ResearchField, Software, Transcription, Transcriptomics
Version	1.20.1
In Bioconductor since	BioC 3.6 (R-3.4) (5.5 years)
License	Artistic-2.0
Depends	R (>= 4.1)
Imports	BiocFileCache, RColorBrewer, cBioPortalData, genefilter, gplots, grDevices, stats, utils, openxlsx
LinkingTo
Suggests	knitr, rmarkdown, BiocStyle
SystemRequirements
Enhances
URL
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	cbaf_1.20.1.tar.gz
Windows Binary	cbaf_1.20.1.zip
macOS Binary (x86_64)	cbaf_1.20.1.tgz
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/cbaf
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/cbaf
Bioc Package Browser	https://code.bioconductor.org/browse/cbaf/
Package Short Url	https://bioconductor.org/packages/cbaf/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.16	Source Archive