JEnsembl: a version-aware Java API to Ensembl data systems.

ABSTRACT:

Motivation

The Ensembl Project provides release-specific Perl APIs for efficient high-level programmatic access to data stored in various Ensembl database schema. Although Perl scripts are perfectly suited for processing large volumes of text-based data, Perl is not ideal for developing large-scale software applications nor embedding in graphical interfaces. The provision of a novel Java API would facilitate type-safe, modular, object-orientated development of new Bioinformatics tools with which to access, analyse and visualize Ensembl data.

Results

The JEnsembl API implementation provides basic data retrieval and manipulation functionality from the Core, Compara and Variation databases for all species in Ensembl and EnsemblGenomes and is a platform for the development of a

SUBMITTER: Paterson T 

PROVIDER: S-EPMC3476335 | biostudies-literature | 2012 Nov

REPOSITORIES: biostudies-literature