4. Software toolsΒΆ
The ISA Model Specification has two Reference Implementations as data formats (ISA-Tab and ISA-JSON) with supporting software tools. Below is a summary list of tools and supported formats.
- Active: In active development and fully supported.
- Maintenance mode: No new features are being developed or planned, and only basic support and bug fixes will be supported.
- Unsupported: Not in development and no support available.
Software tools supported by the ISA Team
Tool | Description | Format | Development Status | Platform |
---|---|---|---|---|
ISA API | Python API for ISA conversions, validation and content creation | ISA-Tab, ISA-JSON | Active (pre-release) | Python 3+ |
ISA Explorer | Visualization and search over collections of ISA-Tabs (browser) | ISA-Tab, ISA-JSON | Not released - see preview | Python 3+ |
linkedISA | Convert ISA-Tab to OWL | ISA-Tab | Active | Java 1.6 |
OntoMaton | Annotation of ISA-Tab spreadsheets | ISA-Tab | Active | Google Spreadsheets Add-on |
rISA | Parse ISA-Tab into R data structures | ISA-Tab | Active | R/Bioconductor |
biopy-isatab | Python Parser for ISA-Tab | ISA-Tab | Active | Python 2.7+ |
ISA creator | Used for creating ISA-Tab files | ISA-Tab | Maintenance mode | Java 1.6 |
ISA-Tab Viewer | Visualizer for ISA-Tabs (browser) | ISA-Tab | Maintenance mode | JavaScript / HTML / CSS |
ISA configurator | Used with ISAcreator to develop ISA-Tab XML Configurations that are used as ISA-Tab templates and used for validating against domain-specific requirements | ISA-Tab | Maintenance mode | Java 1.6 |
ISA validator | Used with ISA XML Configurations to validate ISA-Tab files against domain-specific requirements | ISA-Tab | Maintenance mode | Java 1.6 |
ISA converter | Convert ISA-Tab files into other formats | ISA-Tab | Maintenance mode | Java 1.6 |
BII (Bio Investigation Index) | Web application and DB | ISA-Tab | Maintenance mode | Java 1.6 |
MAGE to ISA converter | Converter which can pull from ArrayExpress (by an accession number) or read local files and convert them to ISAtab. | ISA-Tab | Unsupported | Java 1.6 |
To find these tools please visit http://www.isa-tools.org and http://www.github.com/ISA-tools
Other software tools
Tool | Description | Format | Maintaned by | Platform |
---|---|---|---|---|
ISA to RDF | Convert from ISA-Tab to RDF | ISA-Tab | ToxBank project | Java 1.6 |
Bio-Parser-ISATab | PERL Parser for ISA-Tab | ISA-Tab | Unknown | PERL |
If you are a developer, user, or are aware of other software tools that implement ISA formats that you think should be listed here, please contact the ISA Team.