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4store

4store for BioPortal

bfo

This is a copy of The Basic Formal Ontology (BFO). For testing and reliability NCBO/BioPortal needs to maintain its own copy of BFO.

biomixer

BioMixer

bioportal-project

Serves to consolidate (in Zenhub) all public issues in BioPortal

bioportal-sparql-proxy

This is a django app that acts as a proxy for BioPortal's public triple store. It uses a modified version of the SNORQL browser to help the navigation across graphs and codemirror for syntax highlighting.

bioportal-to-kgx

Assemble a BioPortal Knowledge Graph

bioportal_mappings

A project to generate ontology mappings for BioPortal

bioportal_web_ui

A Rails application for biological ontologies

cube

Cube: A system for time series visualization.

documentation-dev

A (possibly) temporary location for shared developer documentation.

faraday-http-cache

a faraday middleware that respects HTTP cache

flexviz

A Flash-based visualization tool for ontologies using NCBO's retired REST API

git_hooks

Git hooks that are useful in the NCBO development context

goo

Graph Oriented Objects (GOO) for Ruby. A RDF/SPARQL based ORM.

hcomp_ontology_evaluation

Source code for creating and managing Mechanical Turk tasks for ontology evaluation via human computation

healthdata_metadata_challenge

kg-bioportal

BioPortal, as a Knowledge Graph

knowledge

Knowledge transfer materials

mc_sinatra

MC Sinatra is a skeleton Sinatra application and bootstrap/runtime environment that allows for the use of models, controllers, and helpers for creating simple, easy-to-understand web APIs.

ncbo.github.io

ncbo_annotator

To automatically process a piece of data text to annotate it with relevant ontology concepts and return the annotations.

ncbo_annotator_ruby_client

The NCBO Annotator Gem is a Ruby client for NCBO's Annotator Web service

ncbo_api_benchmark

A set scripts to create logs of calls that can be run in Jmeter. Only compatible with the new infrastructure to be released in 2013.

ncbo_cron

Jobs that run on a regular basis in the NCBO infrastructure

ncbo_migration

Scripts for migrating data from older NCBO systems to newer ones

ncbo_ontology_recommender

A ruby application that allows to obtain recommendations for the most relevant ontologies based on an excerpt from a biomedical text or a list of keywords

ncbo_resolver

A small library for resolving legacy NCBO ids to new ones

ncbo_rest_sample_code

Sample code that demonstrates the use of the NCBO REST services

nlmvs2rdf

NIH NLM Value Set as a SKOS ontology

ontolobridge_api_client

Ontolobridge REST API client