automl/hpoglue

HPO tool with a modular API that allows for the easy interfacing of a new Optimizer and a new Benchmark

Language: Python - Size: 158 KB - Last synced at: 2 days ago - Pushed at: 3 days ago - Stars: 4 - Forks: 0

EMI-Group/evorl

EvoRL is a fully GPU-accelerated framework for Evolutionary Reinforcement Learning, implemented with JAX. It supports Reinforcement Learning (RL), Evolutionary Computation (EC), Evolution-guided Reinforcement Learning (ERL), AutoRL, and seamless integration with GPU-optimized simulation environments.

Language: Python - Size: 2.61 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 60 - Forks: 6

obophenotype/hpo-translations

This repo will contain the Human Phenotype Ontology language profiles

Language: Makefile - Size: 12.9 MB - Last synced at: 6 days ago - Pushed at: 6 days ago - Stars: 4 - Forks: 3

obophenotype/human-phenotype-ontology

Ontology for the description of human clinical features

Language: Makefile - Size: 1.84 GB - Last synced at: 9 days ago - Pushed at: 9 days ago - Stars: 306 - Forks: 54

AgileRL/AgileRL

Streamlining reinforcement learning with RLOps. State-of-the-art RL algorithms and tools.

Language: Python - Size: 60.6 MB - Last synced at: 9 days ago - Pushed at: 9 days ago - Stars: 729 - Forks: 59

automl/hposuite

A lightweight framework for benchmarking HPO algorithms

Language: Python - Size: 614 KB - Last synced at: 8 days ago - Pushed at: 10 days ago - Stars: 2 - Forks: 0

LiYangHart/Hyperparameter-Optimization-of-Machine-Learning-Algorithms

Implementation of hyperparameter optimization/tuning methods for machine learning & deep learning models (easy&clear)

Language: Jupyter Notebook - Size: 235 KB - Last synced at: 12 days ago - Pushed at: over 2 years ago - Stars: 1,287 - Forks: 303

prokischlab/omicsDiagnostics

This repository contains different scripts to automate and visualize analysis performed for the "Integration of proteomics with genomics and transcriptomics increases the diagnosis rate of Mendelian disorders"

Language: R - Size: 132 MB - Last synced at: 13 days ago - Pushed at: 13 days ago - Stars: 5 - Forks: 0

P2GX/hpocurator

HPO Curation with Phenopackets

Language: TypeScript - Size: 1.34 MB - Last synced at: 6 days ago - Pushed at: 6 days ago - Stars: 0 - Forks: 0

monarch-initiative/pheval.llm

Analysis of LLMs for Clinical Observations

Language: Python - Size: 53.2 MB - Last synced at: 20 days ago - Pushed at: 20 days ago - Stars: 7 - Forks: 0

automl/arlbench

HPO and Architecture Benchmarking for RL: Dynamically, Reactive and Efficient

Language: Python - Size: 1.39 GB - Last synced at: 8 days ago - Pushed at: about 1 month ago - Stars: 22 - Forks: 2

willleeney/ugle

Python Framework for An Investigation into Unsupervised GNN Learning Environments

Language: Python - Size: 1.54 MB - Last synced at: 7 days ago - Pushed at: 5 months ago - Stars: 8 - Forks: 1

anergictcell/pyhpo

A Python library to work with, analyze, filter and inspect the Human Phenotype Ontology

Language: Python - Size: 143 MB - Last synced at: 3 days ago - Pushed at: about 1 month ago - Stars: 27 - Forks: 3

machinelearningnuremberg/DPL

[NeurIPS 2023] Multi-fidelity hyperparameter optimization with deep power laws that achieves state-of-the-art results across diverse benchmarks.

Language: Python - Size: 13.7 MB - Last synced at: 7 days ago - Pushed at: over 1 year ago - Stars: 15 - Forks: 3

monarch-initiative/loinc2hpo

Java library to map LOINC-encoded test results to Human Phenotype Ontology

Language: Java - Size: 11.3 MB - Last synced at: 15 days ago - Pushed at: over 1 year ago - Stars: 31 - Forks: 8

mlr-org/mlr3mbo

Flexible Bayesian Optimization in R

Language: R - Size: 13.9 MB - Last synced at: 13 days ago - Pushed at: about 2 months ago - Stars: 25 - Forks: 1

GeneDx/txt2hpo

Python library for extracting HPO encoded phenotypes from text

Language: Python - Size: 44.7 MB - Last synced at: 5 days ago - Pushed at: 12 months ago - Stars: 29 - Forks: 4

P2GX/gpsea

A Python library for discovery of genotype-phenotype associations

Language: Python - Size: 29.6 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 5 - Forks: 1

GeneDx/phenopy

Phenotype comparison tools using semantic similarity.

Language: Python - Size: 17.9 MB - Last synced at: 9 days ago - Pushed at: 12 months ago - Stars: 63 - Forks: 10

hyeonsangjeon/Hyperparameters-Optimization

Hyperparameters-Optimization

Language: Jupyter Notebook - Size: 12.1 MB - Last synced at: 22 days ago - Pushed at: about 2 years ago - Stars: 17 - Forks: 3

goktug97/bohb-hpo

Bayesian Optimization Hyperband Hyperparameter Optimization

Language: Python - Size: 52.7 KB - Last synced at: 16 days ago - Pushed at: over 4 years ago - Stars: 38 - Forks: 4

Western-OC2-Lab/Intrusion-Detection-System-Using-Machine-Learning

Code for IDS-ML: intrusion detection system development using machine learning algorithms (Decision tree, random forest, extra trees, XGBoost, stacking, k-means, Bayesian optimization..)

Language: Jupyter Notebook - Size: 17.7 MB - Last synced at: 5 months ago - Pushed at: over 1 year ago - Stars: 423 - Forks: 111

automl-private/significance_analysis

This package is used to analyse datasets of different HPO-algorithms performing on multiple benchmarks.

Language: Jupyter Notebook - Size: 61.9 MB - Last synced at: 2 months ago - Pushed at: 7 months ago - Stars: 0 - Forks: 0

monarch-initiative/HpoTextMining

Perform text mining for identification of HPO terms in free text from scientific publication.

Language: Java - Size: 4.17 MB - Last synced at: 15 days ago - Pushed at: 10 months ago - Stars: 12 - Forks: 2

LGE-ARC-AdvancedAI/auptimizer

An automatic ML model optimization tool.

Language: Python - Size: 52.1 MB - Last synced at: 19 days ago - Pushed at: about 2 years ago - Stars: 200 - Forks: 27

monarch-initiative/phenopacket-store

Collections of GA4GH phenopackets that represent individuals with Mendelian diseases.

Language: Jupyter Notebook - Size: 28.9 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 15 - Forks: 4

ArlindKadra/DPL

[NeurIPS 2023] Multi-fidelity hyperparameter optimization with deep power laws that achieves state-of-the-art results across diverse benchmarks.

Language: Python - Size: 13.7 MB - Last synced at: 8 days ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0

monarch-initiative/PhenoteFX

PhenoteFX

Language: Java - Size: 2.81 MB - Last synced at: 15 days ago - Pushed at: 7 months ago - Stars: 4 - Forks: 1

drseb/HPO-translations

Internationalisation of the HPO content

Size: 11.6 MB - Last synced at: 11 days ago - Pushed at: about 2 years ago - Stars: 19 - Forks: 12

DUTIR-BioNLP/PhenoTagger-Updates

An Improved Method for Phenotype Concept Recognition Using Rich HPO Information

Language: GAP - Size: 77.1 MB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 4 - Forks: 1

otzslayer/hpo-using-optuna-mlflow

A repository that contains an example for hpo using Optuna and MLflow

Language: Python - Size: 94.7 KB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 2 - Forks: 77

machinelearningnuremberg/WellTunedSimpleNets

[NeurIPS 2021] Well-tuned Simple Nets Excel on Tabular Datasets

Language: Python - Size: 95.7 KB - Last synced at: 9 months ago - Pushed at: about 2 years ago - Stars: 71 - Forks: 14

machinelearningnuremberg/DyHPO

[NeurIPS 2022] Supervising the Multi-Fidelity Race of Hyperparameter Configurations

Language: Python - Size: 13.7 MB - Last synced at: 9 months ago - Pushed at: almost 2 years ago - Stars: 10 - Forks: 2

TheJacksonLaboratory/hpo-web

a web application to search and navigate the Human Phenotype Ontology (HPO)

Language: HTML - Size: 163 MB - Last synced at: 10 months ago - Pushed at: 11 months ago - Stars: 11 - Forks: 11

b-mandelbrot/usp-cnn-lstm

Combinando Redes Neurais Convolucionais e Recorrentes para a Classificação de Doenças Pulmonares em Vídeos de Ultrassom

Language: Jupyter Notebook - Size: 1.2 MB - Last synced at: 12 months ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0

umcu/dutch-medical-concepts

Instructions and code to create for a table of UMLS, SNOMED or HPO concepts containing Dutch medical names, usable in named entity recognition and linking methods such MedCAT.

Language: Jupyter Notebook - Size: 377 KB - Last synced at: 12 months ago - Pushed at: about 2 years ago - Stars: 8 - Forks: 2

ncbi-nlp/PhenoTagger

PhenoTagger

Language: GAP - Size: 69 MB - Last synced at: 11 months ago - Pushed at: about 1 year ago - Stars: 48 - Forks: 11

anergictcell/pyhpo_v1

Python library to work with HPO (Human Phenotype Ontology) terms and their gene/disease associations

Language: Python - Size: 45.2 MB - Last synced at: 3 days ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 1

phenotips/phenotips 📦

The open-source version of PhenoTips is no longer maintained. PhenoTips makes it simple to record clinical findings observed in patients with possible genetic disorders through an easy-to-use Web interface

Language: Java - Size: 1.55 GB - Last synced at: about 1 year ago - Pushed at: almost 3 years ago - Stars: 100 - Forks: 64

obophenotype/zebrafish-phenotype-ontology-build

:fish: Zebrafish Phenotype Ontology: Build Tools (OBSOLETE)

Language: Java - Size: 32.8 MB - Last synced at: about 1 year ago - Pushed at: about 7 years ago - Stars: 2 - Forks: 1

jianzhnie/AutoTabular

Automatic machine learning for tabular data. ⚡🔥⚡

Language: Python - Size: 5.91 MB - Last synced at: 11 months ago - Pushed at: over 3 years ago - Stars: 66 - Forks: 10

aramoto99/aiaccel-dev Fork of aistairc/aiaccel

A hyperparameter optimization library for the ABCI.

Language: Python - Size: 4.01 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

dcfidalgo/slurm_sweeps

A simple tool to perform parameter sweeps on SLURM clusters.

Language: Python - Size: 285 KB - Last synced at: about 1 year ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 1

jennyanez/thesis-doc

Thesis about a KNIME component for AutoML in classification tasks. *cries in latex & in knime

Language: TeX - Size: 55.7 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

drseb/HPO-archive

HPO archive of the ontology and annotations

Size: 1.12 GB - Last synced at: 11 days ago - Pushed at: about 8 years ago - Stars: 7 - Forks: 2

Betterpath/Human-Phenotype-Ontology Fork of obophenotype/human-phenotype-ontology

Ontology for the description human phenotypes

Language: Makefile - Size: 154 MB - Last synced at: over 1 year ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0

davetang/human_phenotype_ontology

Resources for working with the Human Phenotype Ontology

Language: Perl - Size: 98.4 MB - Last synced at: 1 day ago - Pushed at: about 3 years ago - Stars: 7 - Forks: 2

anergictcell/pyhpoapi

A REST-API wrapper around PyHPO to handle the Human Phenotype Ontology (HPO) through HTTP(S)

Language: Python - Size: 82 KB - Last synced at: 7 days ago - Pushed at: over 1 year ago - Stars: 3 - Forks: 0

sumny/eagga

Multi-Objective Optimization of Performance and Interpretability of Tabular Supervised Machine Learning Models

Language: R - Size: 4.65 MB - Last synced at: 1 day ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0

demoronator/Diagnosis-Assistant

Diagnosis Assistant for Diagnosing Rare Diseases

Language: Python - Size: 13.4 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 2 - Forks: 0

santimarro/hpo-disease-info-fetcher

This program uses the Human Phenotype Ontology (HPO) API to search for diseases and fetch the relevant data.

Language: Jupyter Notebook - Size: 49.8 KB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 1 - Forks: 0

TheJacksonLaboratory/loinc2hpoAnnotation

loinc2hpo Annotation Data

Language: Python - Size: 1.37 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 22 - Forks: 11

remokasu/benchmark-function

Optimization Benchmark Functions

Language: Python - Size: 4.86 MB - Last synced at: 24 days ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 0

drseb/hpo-owl-qc

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

Language: Java - Size: 49.8 KB - Last synced at: 11 days ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 1

qetdr/xAutoML-Project1

Automated Machine Learning Framework for predicting drinking water quality

Language: Jupyter Notebook - Size: 25.8 MB - Last synced at: 25 days ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 1

monarch-initiative/pyrophen

Pyrophen generates a FHIR Code system representing the Human Phenotype Ontology

Language: Java - Size: 80.1 KB - Last synced at: 15 days ago - Pushed at: over 2 years ago - Stars: 4 - Forks: 2

LeilaZa/HyperParameter-Optimization

Machine Learning Hyperparameter Optimization (Grid Search and Random Search)

Language: Python - Size: 32.2 KB - Last synced at: about 2 years ago - Pushed at: about 3 years ago - Stars: 1 - Forks: 1

neptune-ai/project-hpo-with-ray-tune

Language: Python - Size: 13.7 KB - Last synced at: 5 days ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

logust79/BioTools

Genes variants annotation tools using online services. Also does basic manipulations of HPO.

Language: Python - Size: 2.58 MB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 3 - Forks: 3

Human-Phenotype-Ontology/Human-Phenotype-Ontology.github.io

Human Phenotype Ontology Website

Language: CSS - Size: 1.77 MB - Last synced at: about 2 years ago - Pushed at: almost 7 years ago - Stars: 6 - Forks: 0

drseb/hpo-obo-qc

The QC software for the OBO version of HPO

Language: Java - Size: 35.2 KB - Last synced at: 11 days ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0

drseb/boqa

Bayesian ontology querying from Bauer et al.

Language: Java - Size: 202 KB - Last synced at: 15 days ago - Pushed at: over 6 years ago - Stars: 5 - Forks: 6

maechler/a2e

A library based on Keras, SMAC and HpBandSter to auto tune autoencoder architectures.

Language: Python - Size: 1.2 MB - Last synced at: about 1 year ago - Pushed at: about 4 years ago - Stars: 2 - Forks: 0

Phenomics/phenomics.github.io

Website for the Phenomics and Machine Learning Team

Language: HTML - Size: 2.97 MB - Last synced at: about 2 years ago - Pushed at: about 4 years ago - Stars: 3 - Forks: 5

RaffaeleAns/Adversarial-Fair-Classifier

A Fair Classifier based on Adversarial Debiasing

Language: Jupyter Notebook - Size: 2.2 MB - Last synced at: about 2 years ago - Pushed at: almost 5 years ago - Stars: 2 - Forks: 2

Phenomics/ontolib

A modern Java library for working with (biological) ontologies.

Language: Java - Size: 685 KB - Last synced at: 5 months ago - Pushed at: about 7 years ago - Stars: 9 - Forks: 2

drseb/hpoweb

HPO web browser created with Vaadin

Language: CSS - Size: 1.02 MB - Last synced at: 11 days ago - Pushed at: about 7 years ago - Stars: 1 - Forks: 0

drseb/annotation-simulation

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

Language: Java - Size: 3.14 MB - Last synced at: 11 days ago - Pushed at: over 6 years ago - Stars: 2 - Forks: 1

RaffaeleAns/AML-Assignments

A repository with Advanced Machine Learning Course Assignments (FFNN, AutoEncoders, CNN, TL, HPO)

Language: Jupyter Notebook - Size: 11 MB - Last synced at: about 2 years ago - Pushed at: about 5 years ago - Stars: 0 - Forks: 0

pasted/variant_parser

Selects possible pathogenic variants from an Alamut output

Language: Ruby - Size: 88.9 KB - Last synced at: 2 months ago - Pushed at: almost 7 years ago - Stars: 1 - Forks: 0

nheidloff/hyperparameter-optimization-ibm-watson-studio

Hyperparameter Optimization with IBM Watson Studio

Language: Python - Size: 1.13 MB - Last synced at: about 2 months ago - Pushed at: almost 7 years ago - Stars: 1 - Forks: 0

monarch-initiative/phenounit

PhenoUnit testing framework

Language: Java - Size: 27.3 KB - Last synced at: 11 days ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0

snewhouse/exomiser-clone

Size: 8.79 KB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0