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

Programmatic Interfaces Ensembl Perl API cteria.htmlhttp://bacteria.ensembl.org/info/data/accessing_ensembl_ba cteria.html Ensembl Genomes REST service

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

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 cteria.htmlhttp://bacteria.ensembl.org/info/data/accessing_ensembl_ba cteria.html

Ensembl Genomes REST API Language independent programmatic interface to Ensembl resources Endpoints provide access to wide variety of data e.g. Sequences Features Cross-references

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

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