cbaf

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see cbaf.

Automated functions for comparing various omic data from cbioportal.org


Bioconductor version: 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>

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

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")
cbaf HTML R Script
Reference Manual PDF
NEWS Text

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) (6.5 years)
License Artistic-2.0
Depends R (>= 4.1)
Imports BiocFileCache, RColorBrewer, cBioPortalData, genefilter, gplots, grDevices, stats, utils, openxlsx
System Requirements
URL
See More
Suggests knitr, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report 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