Risa

DOI: 10.18129/B9.bioc.Risa    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see Risa.

Converting experimental metadata from ISA-tab into Bioconductor data structures

Bioconductor version: 3.9

The Investigation / Study / Assay (ISA) tab-delimited format is a general purpose framework with which to collect and communicate complex metadata (i.e. sample characteristics, technologies used, type of measurements made) from experiments employing a combination of technologies, spanning from traditional approaches to high-throughput techniques. Risa allows to access metadata/data in ISA-Tab format and build Bioconductor data structures. Currently, data generated from microarray, flow cytometry and metabolomics-based (i.e. mass spectrometry) assays are supported. The package is extendable and efforts are undergoing to support metadata associated to proteomics assays.

Author: Alejandra Gonzalez-Beltran, Audrey Kauffmann, Steffen Neumann, Gabriella Rustici, ISA Team

Maintainer: Alejandra Gonzalez-Beltran <alejandra.gonzalez.beltran at gmail.com>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("Risa")

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("Risa")

 

PDF	R Script	Risa: converts experimental metadata from ISA-tab into Bioconductor data structures
PDF		Reference Manual
Text		NEWS

Details

biocViews	Annotation, DataImport, MassSpectrometry, Software
Version	1.26.0
In Bioconductor since	BioC 2.11 (R-2.15) (7 years)
License	LGPL
Depends	R (>= 2.0.9), Biobase(>= 2.4.0), methods, Rcpp (>= 0.9.13), biocViews, affy
Imports	xcms
LinkingTo
Suggests	faahKO(>= 1.2.11)
SystemRequirements
Enhances
URL	http://www.isa-tools.org/
BugReports	https://github.com/ISA-tools/Risa/issues
Depends On Me
Imports Me
Suggests Me	mtbls2
Links To Me
Build Report

Package Archives

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

Source Package	Risa_1.26.0.tar.gz
Windows Binary	Risa_1.26.0.zip
Mac OS X 10.11 (El Capitan)	Risa_1.26.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/Risa
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/Risa
Package Short Url	https://bioconductor.org/packages/Risa/
Package Downloads Report	Download Stats