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cbaf

Automated functions for comparing various omic data from cbioportal.org


Bioconductor version: Release (3.18)

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 "4.3") 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 1.24.0
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
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Suggests knitr, rmarkdown, BiocStyle
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Package Archives

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

Source Package cbaf_1.24.0.tar.gz
Windows Binary cbaf_1.24.0.zip
macOS Binary (x86_64) cbaf_1.24.0.tgz
macOS Binary (arm64) cbaf_1.24.0.tgz
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