obophenotype

Repositories

• uberon

  An ontology of gross anatomy covering metazoa. Works in concert with https://github.com/obophenotype/cell-ontology

  ontology anatomy uberon metazoa geneontology monarchinitiative obofoundry
  Emacs Lisp 20 69 679 12 Updated Jul 26, 2021

• brain_data_standards_ontologies

  A repository for co-ordinating work on ontologies for the Brain Data Standards Project

  metadata ontology neuron brain neuroanatomy obofoundry cell-types
  Jupyter Notebook Apache-2.0 2 3 37 3 Updated Jul 26, 2021

• cell-ontology

  An ontology of cell types

  genomics semantic-web owl ontology transcriptomics anatomy metazoa
  Makefile 35 55 340 (3 issues need help) 15 Updated Jul 25, 2021

• human-phenotype-ontology

  Ontology for the description of human clinical features

  semantic-web owl ontology obo phenotyping phenotype ontologies
  Makefile 35 159 54 4 Updated Jul 21, 2021

• bds-pipeline-config

  Brain data standards ontologies building pipeline configuration

  metadata workflow pipeline neuron brain brain-data
  Ruby 0 1 2 0 Updated Jul 21, 2021

• brain_data_standards_queries

  A repository for the Brain Data Standards Ontology cypher queries.
  Python Apache-2.0 0 0 0 0 Updated Jul 19, 2021

• mouse-anatomy-ontology

  Ontologies for mouse anatomy and development

  mouse anatomy obofoundry
  Makefile 1 3 55 0 Updated Jul 19, 2021

• c-elegans-phenotype-ontology

  Ontology for phenotypes pertaining to the nematode Caenorhabditis elegans and related nematodes used by the nematode genome database WormBase

  ontology phenotypes elegans phenotype-ontologies obofoundry nematodes caenorhabditis-elegans
  Makefile 3 5 3 0 Updated Jul 12, 2021

• c-elegans-gross-anatomy-ontology

  C. elegans Gross Anatomy Ontology

  ontology anatomy obofoundry caenorhabditis-elegans
  Makefile 1 3 4 0 Updated Jul 6, 2021

• c-elegans-development-ontology

  C. elegans Development Ontology

  development ontology obofoundry nematodes wormbase caenorhabditis-elegans
  Makefile 1 3 0 0 Updated Jul 6, 2021

• dicty-phenotype-ontology

  Dicty Phenotype Ontology

  ontology phenotypes obofoundry
  Makefile 2 2 1 0 Updated Jun 30, 2021

• ontotools-docker-config

  Forked from EBISPOT/ontotools-docker

  Configuration to deploy ontotools using docker compose
  Shell 5 0 0 0 Updated Jun 28, 2021

• upheno

  The Unified Phenotype Ontology (uPheno) integrates multiple phenotype ontologies into a unified cross-species phenotype ontology.

  obofoundry
  Makefile 11 42 193 (4 issues need help) 8 Updated Jun 23, 2021

• uberon-phenoscape-ext Archived

  Phenoscape extensions to Uberon
  Makefile 0 0 0 0 Updated Jun 21, 2021

• upheno-dev

  Framework for the automated construction of uPheno 2.0
  Python 2 2 17 3 Updated Jun 14, 2021

• ncbitaxon

  Build for NCBITaxon

  taxonomy ontology ncbi-taxonomy obofoundry
  Python BSD-3-Clause 3 12 25 0 Updated Jun 11, 2021

• hpo-translations

  This repo will contain the Human Phenotype Ontology language profiles

  obofoundry
  0 0 2 0 Updated Jun 8, 2021

• pheno_pattern_workbench

  Workbench for Analysing and Alignment Support of Phenotype Ontology Patterns

  monarchinitiative
  CSS 0 1 16 9 Updated Jun 4, 2021

• biological-spatial-ontology

  An ontology for respresenting spatial concepts, anatomical axes, gradients, regions, planes, sides, and surfaces

  spatial anatomy metazoa obofoundry anatomy-ontology
  Makefile 4 4 14 1 Updated Apr 21, 2021

• planaria-ontology

  PLANA, the PLANarian Anatomy Ontology, encompasses the anatomy of developmental stages and adult biotypes of Schmidtea mediterranea.

  ontology anatomy obofoundry
  Makefile 5 5 7 0 Updated Apr 7, 2021

• planarian-phenotype-ontology

  Planarian Phenotype Ontology

  ontology phenotypes obofoundry
  Makefile 1 5 3 0 Updated Apr 5, 2021

• developmental-stage-ontologies

  Source files for various species-specific stage ontologies

  owl ontology anatomy obofoundry anatomy-ontology developmental-stages
  Shell 5 5 46 0 Updated Mar 29, 2021

• xenopus-phenotype-ontology

  XPO represents anatomical, cellular, and gene function phenotypes occurring throughout the development of the African frogs Xenopus laevis and X. tropicalis.

  ontology phenotype xpo obofoundry xenopus-phenotype-ontology xenopus
  Makefile 1 4 22 0 Updated Mar 16, 2021

• CCF_tools

  Some simple wrapper code for integrating HubMap CCF outputs with Uberon
  Python Apache-2.0 0 2 4 1 Updated Mar 15, 2021

• ascomycete-phenotype-ontology

  ontology phenotype fungal obofoundry phenotype-ontology ascomycete
  2 2 2 1 Updated Feb 17, 2021

• chiro

  CHEBI Integrated Role Ontology

  chemistry owl ontology chebi obofoundry chemistry-ontology
  Makefile 4 5 10 2 Updated Dec 18, 2020

• obophenotype.github.io

  Content for obophenotype ontologies
  HTML 0 0 0 0 Updated Nov 6, 2020

• cell-ontology-training

  Training session for the Cell Ontology
  2 5 9 0 Updated Oct 2, 2020

• zebrafish-phenotype-ontology

  ontology anatomy zebrafish obofoundry anatomy-ontology developmental-stages
  Python 3 6 12 1 Updated Aug 2, 2020

• fungal-anatomy-ontology

  A structured controlled vocabulary for the anatomy of fungi

  ontology fungi anatomy obofoundry anatomy-ontology
  Makefile 1 5 7 0 Updated May 7, 2020