1. Microme Workshop, EBI 7 th October 2013 Programmatic Access to Ensembl Bacteria Dan Staines Ensembl Genomes

2. Programmatic Interfaces Ensembl Perl API http://bacteria.ensembl.org/info/docs/api/index.html http://bacteria.ensembl.org/info/data/accessing_ensembl_ba cteria.htmlhttp://bacteria.ensembl.org/info/data/accessing_ensembl_ba cteria.html Ensembl Genomes REST service http://beta.rest.ensemblgenomes.org/

3. Ensembl Perl API Ensembl API Mature, fully featured Perl API for Ensembl resources Provides access to: Genomic sequence Genome features e.g. genes, translations Annotation e.g. cross-references http://bacteria.ensembl.org/info/docs/api/index.html

4. Ensembl Genomes Perl API Supplementary to Ensembl API Provides additional tools for finding Ensembl Bacteria genomes: Find genomes by name pattern Find genomes by INSDC accession Find genomes by taxonomy ID http://bacteria.ensembl.org/info/data/accessing_ensembl_ba cteria.htmlhttp://bacteria.ensembl.org/info/data/accessing_ensembl_ba cteria.html

5. Ensembl Genomes REST API Language independent programmatic interface to Ensembl resources http://beta.rest.ensemblgenomes.org Endpoints provide access to wide variety of data e.g. Sequences Features Cross-references

6. Ensembl Genomes REST API Endpoints provide data in different formats e.g. JSON XML FASTA GFF3 Fully documented including examples in different languages

7. Resources http://beta.rest.ensemblgenomes.org http://bacteria.ensembl.org/info/docs/api/index.html http://bacteria.ensembl.org/info/data/accessing_ensembl _bacteria.html http://bacteria.ensembl.org/info/data/accessing_ensembl _bacteria.html dev@ensembl.org mailing list dev@ensembl.org