The six pilot-stage ISA software components, based on the ISA-Tab format, are designed for local use and can work independently, or as unified system.
Before downloading the ISA software components, familiarize with the
reading material and overview provided at ISAinfrastructure home page.
Release information: |
The alpha and beta versions of the components are released as Java packages. The source codes will be released as soon as core functionalities and documentation are completed, starting from the BioInvestigation Index (BII) component, released in Oct/Nov, 2009. |
Trackers and emails: |
Please, use the feature requests and/or bug report trackers for your feedback, or address your questions to the relevant email contact for the ISAcreator/ ISAconfigurator or the other ISA tools. |
NEW RELEASES (Oct/Nov, 2009)
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A 'user-friendly' standalone Java application with which experimentalists can report, edit experimental metadata and ultimately validate the ISA-Tab formatted files based on the configuration specified.
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A standalone Java application for ‘power users’ (e.g., community curators) to regulate (i.e., declaring certain fields mandatory or mandating the use of certain ontologies) the fields displayed in the ISAcreator.
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A standalone Java application, also used by other ISA components, to check the validity of ISA-Tab formatted experimental metadata. |
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A standalone Java application to validate and transform ISA-Tab formatted experimental metadata into several other related tabular and XML-based formats, for submission to public repositories.
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A standalone Java application manager to validate, load and unloadISA-Tab files into a database (e.g. Oracle, MySQL, PostgreSQL).
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The relational database to store and browse the ISA-Tab formatted experimental metadata via a query interface and web services.
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A package for R which allows you to load in ISA-Tab files and run existing analysis functions such as Bioconductor on the data files within the ISA-Tab. |
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Current List of Collaborators*
Since the release of the ISA-Tab specification, several groups have started working with the ISA team to: implement the format in their own systems, and/or test the ISA tools for thir own local needs, and/or finalize some functionalities, collaboratively. These groups include:
- NET project team at EBI
- Dawn Field and Bela Tiwari, NERC Bioinformatics Center (NEBC), Oxford, UK, EU
- Steffen Neumann, MetWare databases and analysis tools for metabolomics
- Jos Kleinjans, Netherlands Toxicogenomics Centre, Maastricht, NL, EU
- Weida Tong, FDA's NCRT Center for Toxicoinformatics, Little Rock, AR, USA
- Partners of the EU Nutrigenomics project
- Partners of the EU Carcinogenomics project
- Win Hide and Oliver Hofmann, Harvard School of Public Health, Boston, MA, USA
- Ryan Brinkman, British Columbia Cancer Agency, Vancouver, Canada
- Jules Griffin, Biochemistry Department, Cambridge University, UK
- Antoine de Daruvar, Bordeaux Center for Bioinformatics, France
- Magali Roux, Institute for Scientific and Technical Information, CNRS, France
- Richard Scheuernamm, BioMedical Informatics, Southwestern Medical Center, USA
- Phil Lord, School of Computing Science, Newcastle University, UK
- Steffen Neumann, AG Mass Spectrometry and Bioinformatics, IPB Halle, Germany
- Eugene Kolker, Bioinformatics & High-throughput Analysis Core, Seattle Childrens Research Institute and Hospital, Seattle, USA
- Carole Goble and Katy Wolstencroft, SysMO-DB, University of Manchester, UK.
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