Projects in Awesome Lists tagged with phenotype

https://github.com/sbslee/pypgx

A Python package for pharmacogenomics (PGx) research

api cli cyp2d6 genotype pgx pharmacogenetics pharmacogenomics phenotype star-alleles stargazer structural-variation

Last synced: 04 Jan 2026

https://github.com/planteome/plant-trait-ontology

Explore the Plant Trait Ontology on the Planteome site.

obo obofoundry owl phenotype plant-trait-ontology plant-traits

Last synced: 16 Jan 2026

https://github.com/phenopolis/phenopolis

An Open Platform for Harmonisation & Analysis of Sequencing & Phenotype Data

database genetics phenotype server

Last synced: 14 Jul 2025

https://github.com/mgijax/mammalian-phenotype-ontology

Standard terms for annotating mammalian phenotypic data

json mammals obo obofoundry ontology owl phenotype phenotyping

Last synced: 05 Feb 2026

https://github.com/nimh-dsst/dataset-phenotypes

Preparatory scripts for BIDS tabular phenotypic data in large neuroimaging datasets.

abcd abcd-study abide abide-data bids data-dictionary dataset datasets hbn hcp nki phenotype phenotypic pnc tabular tabular-data ukb ukbb ukbiobank

Last synced: 22 Jan 2026

https://github.com/flybase/drosophila-phenotype-ontology

The home of the Drosophila phenotype ontology

flybase obofoundry ontology phenotype

Last synced: 03 Apr 2026

https://github.com/drseb/boqa

Bayesian ontology querying from Bauer et al.

bayesian-inference hpo obofoundry phenotype phenotype-ontologies phenotypes phenotyping similarity

Last synced: 30 Oct 2025

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/theosanderson/malaria_phenotype_papers

Using a GPT3-based classifier to identify malaria papers reporting phenotypes

machine-learning malaria phenotype

Last synced: 08 May 2025

https://github.com/ivanwilliammd/iderare-pheno

IdeRare Phenotype Analysis suite : Convert Indonesia SATUSEHAT terminology (SNOMED-CT, LOINC, ICD-10) to Rare Disease Terminology / Ontology (HPO, OMIM) and find the likelihood differential gene and disease explaining patient phenotype

phenotype phenotype-exchange-format phenotype-genotype-information phenotype-ontologies phenotype-prediction rare-disease

Last synced: 09 Aug 2025

https://github.com/mrueda/pheno-lens

Visualize and Perform Data Analytics on Phenotypic and Clinical Data Stored in GA4GH Standards and Beyond

beacon-v2 beacon2-ri-tools clinical-data elasticsearch kibana kibana-visualization natural-language-processing pheno-lens pheno-ranker pheno-search phenopackets-v2 phenotype phenotypic-data

Last synced: 17 Jul 2025

https://github.com/monarch-initiative/monarch-trapi-kp

NCATS Translator ARA TRAPI wrapper for the Monarch Initiative system

disease monarchinitiative openapi phenotype translator trapi

Last synced: 29 Apr 2026

https://github.com/PaulNSchofield/mpath

Automatically exported from code.google.com/p/mpath

histopathology mammals mice obofoundry pathology phenotype

Last synced: 11 Mar 2025

https://github.com/jcaperella29/clinical-text-mining_r_script

A lightweight R script for text mining and harmonizing medical phenotype data. Cleans, standardizes, and maps diagnoses to ICD-10 codes, with clinical annotations for enhanced data usability.

biomedical-data clinical-informatics data-cleaning data-harmonization database-integration icd-10 machine-learning medical-data nlp-machine-learning one-hot-encoding phenotype r text-mining