This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

Risa

Converting experimental metadata from ISA-tab into Bioconductor data structures

Bioconductor version: Release (3.17)

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>

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

Installation

To install this package, start R (version "4.3") and enter:

if (!require("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")
Risa: converts experimental metadata from ISA-tab into Bioconductor data structures PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Annotation, DataImport, MassSpectrometry, Software
Version 1.42.0
In Bioconductor since BioC 2.11 (R-2.15) (11 years)
License LGPL
Depends R (>= 2.0.9), Biobase(>= 2.4.0), methods, Rcpp (>= 0.9.13), biocViews, affy
Imports xcms
Linking To
Suggests faahKO(>= 1.2.11)
System Requirements
Enhances
URL http://www.isa-tools.org/
Bug Reports https://github.com/ISA-tools/Risa/issues
See More
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_1.42.0.tar.gz
Windows Binary Risa_1.42.0.zip
macOS Binary (x86_64) Risa_1.42.0.tgz
macOS Binary (arm64) Risa_1.42.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/Risa
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Risa
Bioc Package Browser https://code.bioconductor.org/browse/Risa/
Package Short Url https://bioconductor.org/packages/Risa/
Package Downloads Report Download Stats