EBI BioSamples Database Project

  • The source code for the new version of the EMBL-EBI BioSamples database

    Java 1 3 Apache-2.0 Updated Oct 19, 2018
  • A sandbox with example pages from the MarRef database for Bioschemas hackathon purposes

    CSS Apache-2.0 Updated Oct 15, 2018
  • A repository for structured data representation in BioSamples

    Python Updated Sep 10, 2018
  • HTML Updated Sep 4, 2018
  • A simple library to map Java objects and Java beans onto RDF/OWL

    Java 1 Updated Sep 4, 2018
  • Allows you to define a project that produces the binary for a command-line based application, using the Assembly plug-in.

    Java Updated Aug 30, 2018
  • Python Apache-2.0 Updated Aug 23, 2018
  • A simple parser for MarRef XML. Hoping to parse the XML records into JSON-LD to the BioSchemas standards.

    Python Updated Mar 4, 2018
  • Python Updated Feb 15, 2018
  • Updated version of the Biosamples UI to work with a Solr backend

    Java Updated Nov 16, 2017
  • A web scraper to extract amr data from NCBI website

    Python Apache-2.0 Updated Oct 27, 2017
  • myequivalents is a system to manage cross-references between entities, which is compatible with URIs and the Semantic Web.

    Java 2 1 Updated Oct 24, 2017
  • Java Updated Oct 9, 2017
  • EBI BioSamples Solr Indexer

    Java Updated Sep 7, 2017
  • Command line tools to convert various biomedical formats into the SampleTab format, used by the EBI Biosamples Database.

    Java Updated Aug 8, 2017
  • An application to generate the xml specific for the EBI general search interface

    Java Apache-2.0 Updated Jun 21, 2017
  • Java Updated May 9, 2017
  • various sample tab services

    Java Updated Apr 6, 2017
  • Web Ontology Language 1 Updated Apr 5, 2017
  • Annotates sample and sample group characteristics, such as organisms or age, with ontology terms obtained via the ZOOMA tool and number/date/range annotations, extracted via some text mining.

    Java 1 Updated Feb 28, 2017
  • A project aiming "to significantly advance the state of the art with regard to indexing and querying biomedical data with freely available open source software"

    Java 21 Apache-2.0 Updated Oct 24, 2016
  • A processor pluggable into solr core that try to fix UTF8 characters encoding problems

    Java Apache-2.0 Updated Oct 7, 2016
  • A repository to scrape biosamples finding all samples related to a specific owner

    Java Updated Oct 4, 2016
  • Java Updated Aug 3, 2016
  • This component validates the data exported from BioSD to the solr index and reports any discrepancies that might exist.

    Java Updated Jun 2, 2016
  • Java Updated May 12, 2016
  • Java Updated May 3, 2016
  • A simple API to deal with discovery of ontology terms, based on text annotators, like Bioportal Annotator, or ZOOMA.

    Java Updated Apr 29, 2016
  • Defines a POM that you should include in your Maven projects, if they are BioSD-related

    Updated Apr 27, 2016
  • The BioSD Object Model

    Java 1 Updated Apr 19, 2016
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