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Ensembl Core API

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The Ensembl Core API (Application Programming Interface) serves as a middle layer between the underlying MySQL database and the user's script. It aims to encapsulate the database layer by providing high level access to the database.

Find more information (including the installation guide and a tutorial) on the Ensembl website: http://www.ensembl.org/info/docs/api/core/

Download

To clone the Ensembl Core API, use the following command:

git clone https://github.com/Ensembl/ensembl.git

Alternatively, you can download the files in gzipped TAR format from our FTP site.

API requirements

In order to use the Ensembl Core API, an installation of BioPerl 1.6.924 core modules (bioperl-live) is required.

A guide for installing all Ensembl APIs and their respective prerequisites is available here: http://www.ensembl.org/info/docs/api/api_installation.html

API tutorial

An extensive tutorial for the Ensembl Core API can be found at:

http://www.ensembl.org/info/docs/api/core/core_tutorial.html

Contributions

If you wish to contribute to this repository or any Ensembl repository, please refer to our contribution guide.

Contact us

Please email comments or questions to the public Ensembl developers list at

http://lists.ensembl.org/mailman/listinfo/dev.

Questions may also be sent to the Ensembl help desk at

http://www.ensembl.org/Help/Contact.

Ensembl Project's Projects

apollo3 icon apollo3

JBrowse 2 plugin for editing annotations on an Apollo server

bio-db-big icon bio-db-big

Perl XS bindings to libBigWig for access the UCSC/kent big formats

bio-db-hts icon bio-db-hts

Git repo for Bio::DB::HTS module on CPAN, providing Perl links into HTSlib

cpanfiles icon cpanfiles

A collection of additional cpanfiles that have no natural home with any project

cvs2git-wrap icon cvs2git-wrap

A fork of the Anacode Git migration code re-worked for Ensembl

decisions icon decisions

A central place for decisions for the new Ensembl project

echosvc icon echosvc

TCP echo service for localhost (to support autossh)

ensembl icon ensembl

The Ensembl Core Perl API and SQL schema

ensembl-analysis icon ensembl-analysis

Modules to interface with tools used in Ensembl Gene Annotation Process and scripts to run pipelines

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