Data

Tools

Indexes

Applications

Experiments

Awesome

An open API service indexing awesome lists of open source software.

Projects in Awesome Lists tagged with phenotypes

A curated list of projects in awesome lists tagged with phenotypes .

https://github.com/aldro61/kover

Learn interpretable computational phenotyping models from k-merized genomic data

biomarker-discovery genomics k-mer machine-learning phenotypes

Last synced: 11 Oct 2025

https://github.com/germinateplatform/germinate-vue

Germinate is an open source plant database infrastructure and application programming platform on which complex data from genetic resource collections can be stored, queried and visualized.

chemical-compounds climate-data database genetics genotypes germinate mysql pedigree phenotypes plant-genetic-resources vuejs website

Last synced: 09 Feb 2026

https://github.com/pombase/fypo

Fission Yeast Phenotype Ontology

fission-yeast obofoundry phenotypes pombase

Last synced: 16 Jan 2026

https://github.com/obophenotype/c-elegans-phenotype-ontology

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

caenorhabditis-elegans elegans elegans-phenotype-ontology nematodes obofoundry ontology phenotype-ontologies phenotype-term phenotypes

Last synced: 16 Apr 2026

https://github.com/chopdgd/django-phenotype-ontologies

Django app for parsing/loading Phenotype ontologies (HPO, MONDO, OncoTree, etc)

bioinformatics django ontologies phenotypes

Last synced: 16 Feb 2026

https://github.com/nathadriele/biophenotype-rag

This project implements a RAG (Retrieval-Augmented Generation) application to answer questions about phenotypes using biological and genomic data. The pipeline integrates information retrieval with response generation via language models (LLM), facilitating accurate analysis of phenotypic data.

anaconda genomic-data-analysis grafana groq jupyter-notebook langchain llm monitoring phenotypes pinecone pipeline-ingestion postgresql prefect pytest rag sql streamlit

Last synced: 31 Aug 2025

https://github.com/zietzm/phenotype_standardization

https://github.com/zietzm/phenotype_standardization/wiki

medical-informatics pharmacovigilance phenotypes

Last synced: 02 Mar 2025

https://github.com/bio2bel/mesh

A Bio2BEL package for the Medical Subject Headings (MeSH; https://meshb.nlm.nih.gov)

biological-expression-language chemistry mesh phenotypes terminology

Last synced: 29 Jan 2026

https://github.com/drseb/phenopposites

Project to generate phenotype opposite_of relationships and investigate the effect on ontology-based algorithms

ontologies ontology phenomics phenotype phenotype-ontologies phenotypes phenotyping semantic-web semantics similarity-measures

Last synced: 21 Jan 2026

https://github.com/drseb/annotation-simulation

Code to generate ontology annotated objects (e.g. HPO annotated patients)

hpo hpo-annotated-patients patients phenotype phenotype-ontologies phenotypes phenotyping simulation

Last synced: 09 Apr 2025

https://github.com/monarch-initiative/phenotype2phenopacket

Phenotype2Phenopacket is a command-line tool that converts a phenotype annotation into GA4GH Phenopackets, facilitating standardised phenotypic data representation.

monarchinitiative phenopackets phenotypes

Last synced: 29 Oct 2025

https://github.com/bio2bel/hmdd

A Bio2BEL package for converting the Human microRNA Disease Database (HMDD) to BEL

biological-expression-language microrna phenotypes systems-biology

Last synced: 14 Jan 2026

https://github.com/drseb/hpo-owl-qc

The QC software for the OWL version of HPO (only text-checks, not so much logic included)

hpo obofoundry ontology phenomics phenotype phenotype-ontologies phenotypes quality-control

Last synced: 09 Apr 2025