Ensembl Funcgen Summary
The Ensembl regulation database and API are developed and maintained by the Ensembl Regulation team. The main focus of the 'funcgen' database is on experimental data which may elucidate transcriptional regulation. The schema was originally designed to support ChIP on Chip tiling array experiments but soon expanded to support other sequencing-based technologies. The original requirements supported use as a local data storage and analysis platform, as such the regulation data bases supports multiple coordinate systems. There is also support for micro array designs and externally curated data sets. See here for a summary of the data base content.
- Schema documentation: page describing every column of every table of the Ensembl Funcgen database schema.
- Database diagram :
A comprehensive Perl Application Programme Interface (API) provides efficient access to the Ensembl Funcgen database.
- API Installation: A step-by-step installation guide for all Perl Ensembl APIs.
- Funcgen API Documentation: A complete reference to the objects and methods used in the Funcgen database API, through the Doxygen tool.
- Funcgen API Tutorial: An introduction to the underlying concepts of the Funcgen database API.
- API support for old core Regulatory Features: Details of the migration of regulatory feature support from the core API to Funcgen API.
API diagram overviews
See below links to some overviews of the Funcgen API to illustrate what data/objects you can fetch from the classes:
Note: not all the objects of the Ensembl Funcgen API are represented in these diagrams. They are only overviews to help you to understand the main classes in Ensembl Funcgen API.
Ensembl Software Support
Ensembl is an open project and we would like to encourage correspondence and discussions on any subject on any aspect of Ensembl. Please see the Ensembl Contacts page for suitable options getting in touch with us.