A Ruby API to query the Ensembl database for genomic features

Summary: The Ensembl database makes genomic features available via its Genome Browser. It is also possible to access the underlying data through a Perl API for advanced querying. We have developed a full-featured Ruby API to the Ensembl databases, providing the same functionality as the Perl interfa...

Descripción completa

Detalles Bibliográficos
Autores principales: Strozzi, Francesco, Aerts, Jan
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2011
Materias:
Applications Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3065687/
https://www.ncbi.nlm.nih.gov/pubmed/21278190
http://dx.doi.org/10.1093/bioinformatics/btr050
_version_ 1782201013856370688
author Strozzi, Francesco
Aerts, Jan
author_facet Strozzi, Francesco
Aerts, Jan
author_sort Strozzi, Francesco
collection PubMed
description Summary: The Ensembl database makes genomic features available via its Genome Browser. It is also possible to access the underlying data through a Perl API for advanced querying. We have developed a full-featured Ruby API to the Ensembl databases, providing the same functionality as the Perl interface with additional features. A single Ruby API is used to access different releases of the Ensembl databases and is also able to query multi-species databases. Availability and Implementation: Most functionality of the API is provided using the ActiveRecord pattern. The library depends on introspection to make it release independent. The API is available through the Rubygem system and can be installed with the command gem install ruby-ensembl-api. Contact: jan.aerts@esat.kuleuven.be
format Text
id pubmed-3065687
institution National Center for Biotechnology Information
language English
publishDate 2011
publisher Oxford University Press
record_format MEDLINE/PubMed
spelling pubmed-30656872011-03-30 A Ruby API to query the Ensembl database for genomic features Strozzi, Francesco Aerts, Jan Bioinformatics Applications Note Summary: The Ensembl database makes genomic features available via its Genome Browser. It is also possible to access the underlying data through a Perl API for advanced querying. We have developed a full-featured Ruby API to the Ensembl databases, providing the same functionality as the Perl interface with additional features. A single Ruby API is used to access different releases of the Ensembl databases and is also able to query multi-species databases. Availability and Implementation: Most functionality of the API is provided using the ActiveRecord pattern. The library depends on introspection to make it release independent. The API is available through the Rubygem system and can be installed with the command gem install ruby-ensembl-api. Contact: jan.aerts@esat.kuleuven.be Oxford University Press 2011-04-01 2011-01-28 /pmc/articles/PMC3065687/ /pubmed/21278190 http://dx.doi.org/10.1093/bioinformatics/btr050 Text en © The Author(s) 2011. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Note
Strozzi, Francesco
Aerts, Jan
A Ruby API to query the Ensembl database for genomic features
title A Ruby API to query the Ensembl database for genomic features
title_full A Ruby API to query the Ensembl database for genomic features
title_fullStr A Ruby API to query the Ensembl database for genomic features
title_full_unstemmed A Ruby API to query the Ensembl database for genomic features
title_short A Ruby API to query the Ensembl database for genomic features
title_sort ruby api to query the ensembl database for genomic features
topic Applications Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3065687/
https://www.ncbi.nlm.nih.gov/pubmed/21278190
http://dx.doi.org/10.1093/bioinformatics/btr050
work_keys_str_mv AT strozzifrancesco arubyapitoquerytheensembldatabaseforgenomicfeatures
AT aertsjan arubyapitoquerytheensembldatabaseforgenomicfeatures
AT strozzifrancesco rubyapitoquerytheensembldatabaseforgenomicfeatures
AT aertsjan rubyapitoquerytheensembldatabaseforgenomicfeatures

Ejemplares similares