Table 6.
Feature sets supported by each GGB platform. The following table rates support for a comprehensive list of features with the following scale: (x) no support, (⭑) extension module support and (✔) supported by core. You should highlight which features are most important to your user group to ensure that you choose the platform best suited to your needs. Core interface support implies the core application supports this data by providing loaders and front–end visualization. Extension module support implies this functionality has been added by some groups using the application and is now available in a sharable format (extension module or detailed tutorial)
Well-established, recommended platforms | Promising platforms | |||||||
---|---|---|---|---|---|---|---|---|
Tripal | InterMine | Germinate | GenomeHubs/Ensembl | SGN | T3 | Reactome | ||
Feature category | Feature type | Chado & PostgreSQL | PostgreSQL | MySQL | MySQL | Chado & PostgreSQL | MySQL | GraphDb (neo4J) |
Query | Simple full site keyword search | 2 | 2 | 2 | 2 | 2 | 2 | 2 |
Question-based searches (set up by administrator) | 2 | 2 | 2 | x | x | 2 | x | |
Simple advanced searches (multiple fixed filter criteria) | 2 | 2 | 2 | x | 2 | 2 | 2 | |
Query-builder advanced search | x | 2 | 2 | x | 2 | 2 | 2 | |
List support | 1 | 2 | 2 | x | 2 | 2 | x | |
Genomic region search/overlap queries | 1 | 2 | 1 | 2 | 1 | 1 | x | |
Browsing | Basic browsing | 2 | 2 | 2 | 2 | 2 | 2 | 2 |
Data information pages (e.g. gene pages) | 2 | 2 | 2 | 2 | 2 | 2 | 2 | |
Data type-specific summaries | 1 | 2 | 2 | 2 | 2 | 2 | 2 | |
Community | Forum | 1 | x | 1 | x | 2 | 1 | x |
Conference pages | 2 | 1 | 1 | x | x | x | x | |
Community news | 2 | 2 | 2 | x | 2 | 2 | x | |
Community curation | 2 | x | x | x | 2 | x | x | |
Community information pages | 2 | 1 | 2 | x | 2 | x | x | |
Data sharing | Web services | 2 | 2 | 2 | 2 | 2 | 2 | 2 |
Query across sites | 2 | 2 | 1 | x | 2 | 1 | 2 | |
Reference sister sites | 2 | 2 | 2 | 2 | 2 | 2 | 2 | |
Other | Genome browser integration | 1 | 2 | 1 | 2 | 2 | 1 | x |
BLAST integration | 1 | 1 | 1 | 2 | 2 | 1 | x | |
Access control (login system) | 2 | 2 | 2 | 2 | 2 | 2 | x | |
Data analysis tools | 1 | 1 | 2 | 2 | 2 | 2 | 2 |