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isa-api
ISA tools APIOntoMaton
OntoMaton facilitates ontology search and tagging functionalities within Google Spreadsheets.ISAcreator
ISAcreator is a Java desktop application which allows for the creation and editing of ISA-Tab files. Originally developed by Eamonn Maguire, with further contributions by Alejandra Gonzalez-Beltran, David Johnson and Philippe Rocca-Serra (Uni. of Oxford).stato
This is the development repository for the STATistics Ontology (STATO). For more information and demonstration on the ontology content, please visit its website:SequenceLogoVis
A better sequence logo visualizationRisa
Risa allows to access metadata/data in ISA-tab format and builds Bioconductor data structures. Apart from parsing ISA-tab files, the package also provides functionality to save the ISA-tab dataset, or each of its individual files. Additionally, it is also possible to update assay files. Currently, metadata associated to proteomics and metabolomics-based assays (i.e. mass spectrometry) can be processed into an xcmsSet object (from the xcms R package).biopy-isatab
Python parser for ISAtab, a biological file format for experimental metadataBioInvIndex
The web application, model, database persistence, services package and web services for the BII. Led by Eamonn Maguire (Uni. of Oxford) & Philippe Rocca-Serra (Uni. of Oxford).ISAconfigurator
The ISAconfigurator allows for creation of XML files (configuration files) used to build spreadsheets in the ISAcreator and for validation in the creator and ISAvalidation code. Led by Eamonn Maguire, Philippe Rocca-Serra (Uni. of Oxford).ISAvalidator-ISAconverter-BIImanager
The ISAvalidator, ISA converter and BII data manager toolsmzml2isa
Parser to get meta information from mzML file and parse relevant information to a ISA-Tab structurelinkedISA
Package to convert ISA-TAB files into RDF data relying on different semantic frameworks (OWL ontologies).ISAdatasets
Repository for ISA datasets, which may be available in different formats (tab, RDF, JSON)isa-explorer
A lightweight web-based ISA-Tab viewer for multiple ISA-Tab files.MAGEtoISAconverter
Converter which can pull from ArrayExpress (by an accession number) or read local files and convert them to ISAtab. Lead by Philippe Rocca-Serra & Eamonn Maguire, University of Oxfordmzml2isa-galaxy
mzml2isa for galaxygraph2tab
graph2tab, a library to convert experimental workflow graphs into tabular formatsjUtils
jUtils, a miscellanea of small and handy general purpose utilities for Javaisatools-notebooks
Example Jupyter notebooks using the ISA-APIisa-specs
ISA Model and Serialization SpecificationsMSIO
Metabolomics Standards Initiative Ontologyfrictionless-collab
Frictionless JSON Data Packages for Life ScienceFAIRsharing-Owl2Neo
OWL Importer to Neo4j for FAIRsharingisa-configurations
ISAconfiguration files which have been created by the ISAconfigurator. These can be used by ISAcreator, ISAvalidator, ISAconverter and the BII Data Management Toolsoapdenovo2
SOAPdenovo2 case study websiteDocbooks
DocumentationISAcreatorPlugins
Plugins developed for use in the ISAcreator. They should be placed in a 'Plugins' directory in the ISAcreator build environment.ISATab-Viewer
An ISA-Tab web viewing library written in Javascript.NanoMaton
ISAtabErrorReporter
A GUI to display ISAtab errors, showing images of files and listing the errors clearly.isa-rest-service
RESTful web service to use ISA APIBioSharingUtils
A selection of tools to automatically update content in BioSharing.BioFormats
BioFormat code developed at WebValleyisa-rwval
Read/write/validation packages for the ISA tools APIlinkedISA-ws
RESTful web service for converting ISATab files into RDF, relying on the linkedISA converter..ISAValidatorWS
Restful Webservice for Validation of ISATab files.nmrml2isa-galaxy
nmrml2isa for galaxyisa-cookbook
ISA python API documentationMAGEToISAConverterWS
RESTful web service implementation for the MAGEtoISAconverter. You shouldSIR-metabolomics-CV
Stable Isotope Resolved Metabolomics TerminologyNovartisMetastore
Connection code to the Novartis metastoreAutomacron
Motif finding algorithm and tool to find functionally relevant motifs in workflows.HelpWebUtility
The web browser in this package has pretty basic functionalities, but is also quite flexible, and for in-app browsing, like that done in IntelliJ for instance, in order to navigate to help pages, it is perfect. I don't need any special JNI calls to invoke browsers therefore I don't introduce platform-dependent code into the codebase.Love Open Source and this site? Check out how you can help us