From 9b55d8693e0f0d10d5ded05a65fd885c21e435ec Mon Sep 17 00:00:00 2001 From: Deepak Date: Tue, 12 Mar 2024 17:07:15 +0900 Subject: [PATCH] Update links and autogenerated artifacts in README.md --- README.md | 30 +++++++++++++----------------- 1 file changed, 13 insertions(+), 17 deletions(-) diff --git a/README.md b/README.md index a90057743..908c8b623 100644 --- a/README.md +++ b/README.md @@ -1,21 +1,22 @@ -[![](https://img.shields.io/github/license/biolink/biolink-model)](https://img.shields.io/github/license/biolink/biolink-model) [![Biolink Model](https://img.shields.io/github/v/release/biolink/biolink-model?style=flat-square)](https://img.shields.io/github/v/release/biolink/biolink-model?style=flat-square) -[![Python 3.10.1](https://upload.wikimedia.org/wikipedia/commons/f/fc/Blue_Python_3.7_Shield_Badge.svg)](https://www.python.org/downloads/release/python-370/) +[![Python 3.9](https://img.shields.io/badge/python-3.9+-blue)](https://img.shields.io/badge/python-3.9+-blue) [![DOI](https://zenodo.org/badge/112995625.svg)](https://zenodo.org/badge/latestdoi/112995625) - + -# Biolink Model: https://w3id.org/biolink/biolink-model.yaml +# Biolink Model + +**Biolink Model:** https://w3id.org/biolink/biolink-model.yaml Quickstart docs: For a good overview of the biolink-model, [watch Chris Mungall's talk](https://www.youtube.com/watch?v=RE1hFm8lvJA&t=2s) at ICBO 2020. - Browse the model: [https://biolink.github.io/biolink-model](https://biolink.github.io/biolink-model) - - [named thing](https://biolink.github.io/biolink-model/docs/NamedThing.html) - - [association](https://biolink.github.io/biolink-model/docs/Association.html) - - [predicate](https://biolink.github.io/biolink-model/docs/predicates.html) + - [named thing](https://biolink.github.io/biolink-model/NamedThing/) + - [association](https://biolink.github.io/biolink-model/Association/) + - [predicate](https://biolink.github.io/biolink-model/related_to/) Refer to the following resources for a quick introduction to the Biolink Model: @@ -24,7 +25,7 @@ Refer to the following resources for a quick introduction to the Biolink Model: - Slides: https://bit.ly/biolink-model-workshop-biocuration-2020 - Video: https://www.youtube.com/watch?v=RE1hFm8lvJA -See also [Biolink Model Guidelines](guidelines/README.md) for help understanding, curating, and working with the model. +See also the Biolink Model Documentation for help in [understanding](https://biolink.github.io/biolink-model/), [curating](https://biolink.github.io/biolink-model/curating-the-model/), and [working](https://biolink.github.io/biolink-model/working-with-the-model/) with the model. ## Introduction @@ -47,7 +48,7 @@ The model itself is being used in the following projects: - [Monarch Initiative](https://monarchinitiative.org/) - [KG-COVID-19](https://github.com/Knowledge-Graph-Hub/kg-covid-19/wiki) - [KG Microbe](https://github.com/Knowledge-Graph-Hub/kg-microbe) -- [Illuminating the Druggable Genome]() +- [Illuminating the Druggable Genome](https://github.com/Knowledge-Graph-Hub/kg-idg) ## Organization @@ -58,19 +59,14 @@ be relatively simple to view and edit in its native form. The yaml definition is currently used to derive: - [JSON Schema](https://github.com/biolink/biolink-model/blob/master/project/jsonschema/biolink_model.schema.json) - - [Python dataclasses](biolink/model.py) - - [Java code gen](java) + - [Python dataclasses](https://github.com/biolink/biolink-model/blob/master/src/biolink_model/datamodel/model.py) - [ProtoBuf definitions](https://github.com/biolink/biolink-model/blob/master/project/protobuf/biolink_model.proto) - [GraphQL](https://github.com/biolink/biolink-model/blob/master/project/graphql/biolink_model.graphql) - - [RDF](biolink-model.ttl) - [OWL](https://github.com/biolink/biolink-model/blob/master/project/owl/biolink_model.owl.ttl) - [RDF Shape Expressions](https://github.com/biolink/biolink-model/blob/master/project/shex/biolink_model.shex) - [JSON-LD context](https://github.com/biolink/biolink-model/blob/master/project/jsonld/biolink_model.context.jsonld) - - [Graphviz](graphviz) - - [GOlr YAML schemas](golr-views) - - these can be compiled down to Solr XML schemas - - these are also intermediate targets used within the BBOP/AmiGO framework - - [Markdown documentation](docs) + - [SHACL Shapes](https://github.com/biolink/biolink-model/blob/master/project/shacl/biolink_model.shacl.ttl) + - [ShEx Shapes](https://github.com/biolink/biolink-model/blob/master/project/shex/biolink_model.shex) ## Citing Biolink Model