Discover cmungall/omeo Open Source project

migrates tickets to GH from SF

gosf2github

Javascript wrapper for the OWLAPI

owljs

Web Ontology Language

blipkit

biological logic programming toolkit

cltools

tools for common-logic

Prolog module for querying wikidata using sparqlprog framework

sparqlprog_wikidata

Alignment between ESIP SWEET and Open Bio Ontologies

sweet-obo-alignment

A knowledge extraction tool that uses a large language model to extract semantic information from text

semantic-llama

prolog wrapper for PyGR Nested Containment Lists (NCLs)

intervaldb

linkml-phenopackets

EXPERIMENTAL rendering of phenopackets in linkml

Python library for denormalizing nested dicts or json objects to tables and back

json-flattener

collected documents specifying new obo<->owl translation

obo2owl

sql_compiler

Translates logic program queries to SQL

standalone perl scripts for hacking obo files

obo-scripts

Draxler prolog to SQL compiler

sql_compiler-OLD

Matches ontology classes against wikidata

wikidata_ontomatcher

RDF schema to prolog compiler

rdfs2pl

python wrapper to sparqlprog logic programming framework

sparqlprog-python

OWL Library layered on top of SWI-Prolog semweb RDF library

rdf_owl

perl module for querying and manipulating complex data as recursively nested tag/value pairs (Structured tags or Simple Tree aggreggates)

data-stag

Common logic axioms enhancing various bio-ontologies

bio-clif

prologterms-py

a python library for constructing prolog terms

Yet another mesh to ontology conversion

mesh2owl

Relational Database to Hierarchical (Stag/XML) Mapping

DBIx-DBStag

systems biology prolog library

pl-sysbio

Minimal Information About a New Cell Type

mianct-schema

Mappings to present bio-databases as SPARQL endpoints

bio-d2rq-mappings

Shell

formal-ontology-analysis

Parses textual descriptions of reactions

reactioner

owl utilities enhancing swipl semweb library

swipl-owly

plboqa

Selected LOV schemas converted to prolog

lov_schemas

mixs-source

bioperl extensions for OWL generation

bioperl-owl

Agrovoc alignment to OBO Ontologies

agrovoc-obo

draft of paper: Shadowboxing: Mirroring the TBox in the ABox

shadowboxing-paper

PostScript

biostag

Stag SQL templates for various bio-databases

Prolog database connectivity interface

pldbc

agrovoc-obo-alignment

Serial Homology Ontology Generation Engine

shoge

ontologizing phenotype descriptions from ensvar

ensvar-phenotype

Semantic similarity ontology

unipathway

semsimo

obi-mappings

prolog predicate translation of OBO Relations Ontology

obo_ro

causal phenotype networks

deep-learning-ontology-OLD

cpn

Collects Data::Stag, DBIx::DBStag, biostag

stag

kboom-paper

TeX

capital-offence

Maintain list of proper nouns and inconsistent ontology labels

Documentation on REST API and JSON payload for term enrichment services

term-enrichment-protocol

semantic modeling of data manifests

data-manifesto

cell-type-schema

experiment

nlx-pl

Neurolex prolog utils

obo-relations-test

animal-disease

Notes on modeling modal quantifiers in OWL

modal-in-owl

nmdc-annotator

temporalized-relations-critique

paper in progress

obo_metadata

mosscide

sculptor

mixs-demo

Meant to be a standard DBIx::Class layer for the Chado database schema. Generated using DBIx::Class::Schema::Loader

multi-axial-ontology-test

Web Ontology Language

dbic_chado

owl-schema

schema for OWL in LinkML

index_util

Base framework for creating semantic QC dashboards

dasher

LinkML schema representation of SESAR / geosamples.org

linkml-sesar

yaml-ontology-metalanguage

A YAML syntax for OWL that adds MetaClasses (Design Patterns)

Java

roge-engine

Rhino Ontology Generation Engine

JavaScript

envo-variable-parser

Pipelines for making and normalizing OWL from various disease representations

diseases2owl

OWL using swipl semweb/rdf libraries

rdf_owlpl

Effect of OBO synonym scopes on Named Entity Recognition

ner-obo-synonyms

science-award-analysis

gold-ontology

ontology metadata browser

omb

JavaScript

pl-genome

Rhino Ontology Generation Engine

roge-name

obo-anatomy-analysis

historic analysis of OBO anatomy ontologies

pl-semsim

Obolog specification (abandoned)

cmungall.github.com

obolog

HTML

py-minimake

Minimal make-like pure python environment

disjointness-analysis

obo_core

pattern2owl

gemet-obo

Aligning GEMET to OBOs

Code to download and convert data from various online bioinformatics repositories

biowarehouse

mixs-demo-combinatorial