sumirp

sumirp's Stars

• alshedivat/al-folio

  A beautiful, simple, clean, and responsive Jekyll theme for academics

  Language:HTML11.2k2357211.2k

• mljar/mercury

  Convert Jupyter Notebooks to Web Apps

  Language:Python4k45431256

• danielecook/Awesome-Bioinformatics

  A curated list of awesome Bioinformatics libraries and software.

  3.2k16910618

• monarch-initiative/ontogpt

  LLM-based ontological extraction tools, including SPIRES

  Language:Jupyter Notebook6072020476

• caufieldjh/awesome-bioie

  🧫 A curated list of resources relevant to doing Biomedical Information Extraction (including BioNLP)

  34520833

• linkml/linkml

  Linked Open Data Modeling Language

  Language:Python321151.3k100

• obophenotype/human-phenotype-ontology

  Ontology for the description of human clinical features

  Language:Makefile2932610.5k51

• ontodev/robot

  ROBOT is an OBO Tool

  Language:Java2621973574

• csbl-br/awesome-compbio-chatgpt

  An awesome repository of community-curated applications of ChatGPT and other LLMs im computational biology

  25111025

• monarch-initiative/mondo

  Mondo Disease Ontology

  Language:Jupyter Notebook236113.6k53

• exomiser/Exomiser

  A Tool to Annotate and Prioritize Exome Variants

  Language:Java2022450755

• biolink/biolink-model

  Schema and generated objects for biolink data model and upper ontology

  Language:Python1762681272

• mapping-commons/sssom

  Simple Standard for Sharing Ontology Mappings

  Language:Python1513222224

• obophenotype/uberon

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

  Language:Emacs Lisp134282.4k29

• INCATools/ontology-access-kit

  Ontology Access Kit: A python library and command line application for working with ontologies

  Language:Python1231434629

• biopragmatics/bioregistry

  📮 An integrative registry of biological databases, ontologies, and nomenclatures.

  Language:Python120952053

• OBOAcademy/obook

  OBO Organized Knowledge: Training materials for becoming an OBO engineer

  Language:Makefile931517738

• biopragmatics/pyobo

  📛 A Python package for using ontologies, terminologies, and biomedical nomenclatures

  Language:Python61311314

• monarch-initiative/curate-gpt

  LLM-driven curation assist tool (pre-alpha)

  Language:Jupyter Notebook5673911

• monarch-initiative/MAxO

  Medical action ontology

  Language:HTML5273904

• biopragmatics/biomappings

  🗺️ Community curated and predicted equivalences and related mappings between named biological entities that are not available from primary sources.

  Language:Jupyter Notebook5084713

• ebi-chebi/ChEBI

  Chemical Entities of Biological Interest (ChEBI) is a freely available dictionary of molecular entities focused on ‘small’ chemical compounds.

  43134.6k10

• INCATools/ubergraph

  Integrated OBO ontology store

  Language:Makefile435803

• saphetor/varsome-api-client-python

  Example client programs for Saphetor's VarSome annotation API

  Language:Python3211913

• OHSUBD2K/BDK14-Ontologies-101

  BD2K Module 14

  226114

• pombase/fypo

  Fission Yeast Phenotype Ontology

  Language:Makefile1544.4k6

• PROconsortium/PRoteinOntology

  Language:HTML1443133

• obophenotype/cell-ontology-training

  Training session for the Cell Ontology

  712102

• biopragmatics/semra

  🛣️ Semantic Mapping Reasoning Assembler (SeMRA): tooling for semantic mappings

  Language:Jupyter Notebook6371

• geneontology/paint

  This curation tool allows curators to make precise assertions as to when functions were gained and lost during evolution and record the evidence (e.g. experimentally supported GO annotations and phylogenetic information including orthology) for those assertions.

  Language:Java422554