Skip to content

OBO Semantic Engineering Training

Basic Tutorial

Initializing search

OBO Semantic Engineering Training

About the course
Getting started with learning
Overview of lessons and tutorials
Contribute to the course
Courses
Courses
Pathways
Pathways
Lessons
Lessons
Lessons In Development
Lessons In Development
Tutorials
Tutorials
- Protege
  Protege
  - DL queries
  - Disjointness
- Ontology Pipelines - ODK, ROBOT, etc
  Ontology Pipelines - ODK, ROBOT, etc
- Templates
  Templates
- Git, GitHub and Collaborative Workflows
  Git, GitHub and Collaborative Workflows
- OntoGPT
  OntoGPT
  - OntoGPT Introduction
  - OntoGPT in Practice
- Dealing with Semantic Data
  Dealing with Semantic Data
- Command line
  Command line
  - Basic introduction to CLI 1
  - Basic introduction to CLI 2
- Mappings and SSSOM
  Mappings and SSSOM
  - Basic Tutorial Basic Tutorial
    Table of contents
    
    Tutorials and Explainers
  - Lexical Matching with OAK Lexmatch
  - Introduction to the SSSOM Toolkit
  - Curating Mappings with Biomappings
- General Ontology Modelling
  General Ontology Modelling
  - Project Ontology Development
  - Family History Knowledge Base (FHKB) tutorial
- Exomiser
  Exomiser
  - Introduction to Exomiser
- Information Extraction
  Information Extraction
How-to guides
How-to guides
- General
  General
- Protege
  Protege
- ODK
  ODK
- Git and GitHub
  Git and GitHub
- Quality control
  Quality control
  - Deploy a custom OBO-Dashboard
- Command line
  Command line
  - How to filter a file based on another file
- Mappings
  Mappings
  - Are these two entities the same? A guide.
  - How to review disease mappings
Reference
Reference
- Tools
- Glossary of Terms
- Frequently used ODK commands
- Protege Interface
- Protege FAQ
- LLMs for the Semantic Engineer
- Formatting your ontology annotations correctly
- OBO-style term annotation
- Ontology Matching
  Ontology Matching
  - Semantic ETL
- Git
  Git
- Semantic Engineering Toolbox
- Tables and Triples
- Reasoning
- A day in the life of an ontology curator
- Protege interface
- SPARQL
  SPARQL
  - SPARQL basics
  - SPARQL templates
- Tools for Managing Issues
- Release Artefacts
- Base Release
- Synonym Properties
- Synonym Types
- Synonym Validation
- Monkeying around with OWL
- Ontology Development Kit (ODK)
- Troubleshooting ROBOT
- Common Errors in GitHub actions
- Other useful resources
- Medical Ontology landscape
- A reference guide to Wikidata
- OBOOK Maturity Indicator
- ChatGPT
  ChatGPT
  - Leveraging ChatGPT for ontology curation
- Ontology User references
Explanations
Explanations
OBOOK Editors
OBOOK Editors
Outreach
Outreach
- Outreach materials

Table of contents

Tutorials and Explainers

Practical introduction to SSSOM¶

Tutorials and Explainers¶

Introduction to mapping curation with SSSOM
How to use mapping predicates?
Guide to publishing 5-Star mappings

Made with Material for MkDocs