EpistasisLab/PAGER

Language: Python - Size: 397 KB - Last synced: 4 days ago - Pushed: 4 days ago - Stars: 1 - Forks: 1

EpistasisLab/tpot

A Python Automated Machine Learning tool that optimizes machine learning pipelines using genetic programming.

Language: Python - Size: 76.1 MB - Last synced: 9 days ago - Pushed: 23 days ago - Stars: 9,540 - Forks: 1,547

EpistasisLab/KRAGEN

Software to implement GoT with a weviate vectorized database

Language: Python - Size: 4.81 MB - Last synced: 17 days ago - Pushed: 17 days ago - Stars: 439 - Forks: 21

EpistasisLab/STAR_outliers

Language: Python - Size: 113 MB - Last synced: 20 days ago - Pushed: 21 days ago - Stars: 0 - Forks: 1

EpistasisLab/tpot2

A Python Automated Machine Learning tool that optimizes machine learning pipelines using genetic programming.

Language: Jupyter Notebook - Size: 5.44 MB - Last synced: 21 days ago - Pushed: 21 days ago - Stars: 151 - Forks: 22

EpistasisLab/Aliro

Aliro: AI-Driven Data Science

Language: JavaScript - Size: 359 MB - Last synced: 16 days ago - Pushed: about 2 months ago - Stars: 222 - Forks: 63

EpistasisLab/pmlb

PMLB: A large, curated repository of benchmark datasets for evaluating supervised machine learning algorithms.

Language: Python - Size: 235 MB - Last synced: 27 days ago - Pushed: 6 months ago - Stars: 786 - Forks: 129

EpistasisLab/autoqtl

Automated Quantitative Trait Locus Analysis (AutoQTL)

Language: Python - Size: 26.7 MB - Last synced: about 23 hours ago - Pushed: 3 months ago - Stars: 7 - Forks: 3

EpistasisLab/scikit-mdr

A sklearn-compatible Python implementation of Multifactor Dimensionality Reduction (MDR) for feature construction.

Language: Python - Size: 138 KB - Last synced: 10 days ago - Pushed: 12 months ago - Stars: 125 - Forks: 26

EpistasisLab/alzkb-site

Language: CSS - Size: 1000 KB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0

EpistasisLab/tpot2-feedstock Fork of conda-forge/tpot2-feedstock

A conda-smithy repository for tpot2.

Size: 19.5 KB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0

EpistasisLab/GPT4_and_Review

Using GPT-4 to write a scientific review article: a pilot evaluation study

Language: Python - Size: 7.43 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0

EpistasisLab/tpot2_imputetest Fork of EpistasisLab/tpot2

Testing complex imputation methods on a Python Automated Machine Learning tool that optimizes machine learning pipelines using genetic programming.

Language: Jupyter Notebook - Size: 60.4 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 1 - Forks: 0

EpistasisLab/ml-analyst

Analysis pipeline for quick ML analyses.

Language: Python - Size: 67.4 KB - Last synced: 3 months ago - Pushed: over 5 years ago - Stars: 11 - Forks: 5

EpistasisLab/EpistasisLab.github.io

Identifying the complex genetic architectures of disease

Size: 8.79 KB - Last synced: 3 months ago - Pushed: over 2 years ago - Stars: 6 - Forks: 3

EpistasisLab/scikit-rebate

A scikit-learn-compatible Python implementation of ReBATE, a suite of Relief-based feature selection algorithms for Machine Learning.

Language: Python - Size: 12.9 MB - Last synced: 3 months ago - Pushed: over 1 year ago - Stars: 394 - Forks: 70

EpistasisLab/AlzKB

Language: Python - Size: 944 KB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 1 - Forks: 2

EpistasisLab/regens

Recombines real genomic segments to simulate whole genomes

Language: Python - Size: 206 MB - Last synced: about 2 months ago - Pushed: over 3 years ago - Stars: 4 - Forks: 2

EpistasisLab/PICV

Proportional instance cross validation

Size: 3.07 MB - Last synced: 8 months ago - Pushed: over 6 years ago - Stars: 1 - Forks: 1

EpistasisLab/ClinicalDataSources

Open or Easy Access Clinical Data Sources for Biomedical Research

Size: 7.81 KB - Last synced: 8 months ago - Pushed: over 7 years ago - Stars: 161 - Forks: 34

EpistasisLab/hibachi

Data simulation software that creates data sets with particular characteristics

Language: Python - Size: 3.46 MB - Last synced: 8 months ago - Pushed: over 5 years ago - Stars: 8 - Forks: 9

EpistasisLab/ReBATE

Relief Based Algorithms of ReBATE implemented in Python with Cython optimization. This repository is no longer being updated. Please see scikit-rebate.

Language: Python - Size: 1.92 MB - Last synced: 8 months ago - Pushed: about 6 years ago - Stars: 31 - Forks: 12

EpistasisLab/PSB2024_spine

Language: Python - Size: 3.67 MB - Last synced: 9 months ago - Pushed: 9 months ago - Stars: 0 - Forks: 0

EpistasisLab/AliroGPT Fork of EpistasisLab/Aliro

Aliro: AI-Driven Data Science

Size: 351 MB - Last synced: 10 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0

EpistasisLab/tpot2_gptp_experiments

Language: Jupyter Notebook - Size: 1.49 MB - Last synced: 10 months ago - Pushed: 10 months ago - Stars: 0 - Forks: 0

EpistasisLab/STAR_outliers_figure_and_table_generation

Language: Python - Size: 6.56 MB - Last synced: 10 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

EpistasisLab/tpot2-test Fork of EpistasisLab/tpot2

A Python Automated Machine Learning tool that optimizes machine learning pipelines using genetic programming.

Size: 2.14 MB - Last synced: 10 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

EpistasisLab/regens-analysis

Language: Shell - Size: 1.06 GB - Last synced: 10 months ago - Pushed: over 3 years ago - Stars: 1 - Forks: 1

EpistasisLab/SimpleModelView

A Unity package for a simplified model-view system to help with code<->UI management.

Language: ShaderLab - Size: 1.1 MB - Last synced: 10 months ago - Pushed: almost 4 years ago - Stars: 2 - Forks: 2

EpistasisLab/PennAI-Ed

Materials for PennAI-Ed - an initiative to enhance AI and data science education built on PennAI

Language: Shell - Size: 19.5 KB - Last synced: 10 months ago - Pushed: over 3 years ago - Stars: 1 - Forks: 0

EpistasisLab/process-ukbb

Size: 1000 Bytes - Last synced: 10 months ago - Pushed: about 4 years ago - Stars: 0 - Forks: 0

EpistasisLab/pennai-arm64-deps

Pre-compiled dependencies for building PennAI Docker images on 64-bit ARM OSs (e.g., raspberry pi)

Size: 4.88 KB - Last synced: 10 months ago - Pushed: over 3 years ago - Stars: 1 - Forks: 0

EpistasisLab/pennai-ed-gen Fork of RPi-Distro/pi-gen

Fork of `pi-gen` used to build Raspberry Pi OS images for PennAI-Ed

Size: 971 KB - Last synced: 10 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

EpistasisLab/MIMIC_trajectories

Language: Jupyter Notebook - Size: 203 KB - Last synced: 10 months ago - Pushed: almost 7 years ago - Stars: 30 - Forks: 19

EpistasisLab/malaria-challenge

The Malaria DREAM Challenge

Language: Jupyter Notebook - Size: 3.24 MB - Last synced: 10 months ago - Pushed: almost 5 years ago - Stars: 0 - Forks: 2

EpistasisLab/LPC

Documentation and informational resources for LPC use

Size: 1.13 MB - Last synced: 10 months ago - Pushed: over 3 years ago - Stars: 1 - Forks: 8

EpistasisLab/3DHeatmap

3D Heatmap tool in Unity3D. Inst. for Biomed. Informatics, Univ. of PA

Language: C# - Size: 545 MB - Last synced: 10 months ago - Pushed: almost 4 years ago - Stars: 6 - Forks: 3

EpistasisLab/aliro-imager Fork of raspberrypi/rpi-imager

Language: C - Size: 25.3 MB - Last synced: 10 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0

EpistasisLab/digen

Diverse and generative ML benchmarks

Language: Jupyter Notebook - Size: 107 MB - Last synced: 3 months ago - Pushed: almost 2 years ago - Stars: 13 - Forks: 3

EpistasisLab/DTox

A knowledge-guided deep learning model for prediction and interpretation of drug toxicity

Language: HTML - Size: 67 MB - Last synced: 10 months ago - Pushed: over 1 year ago - Stars: 2 - Forks: 0

EpistasisLab/epistasis_detection

Implementation of an efficient algorithm to compute linear regression models for epistasis that permit varied genetic encodings (penetrance functions) of the interactions of loci and provide statistical evidence for epistasis.

Language: Jupyter Notebook - Size: 489 KB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0

EpistasisLab/SAFE

The SAFE Algorithm: Solution and Fitness Evolution

Language: Python - Size: 175 KB - Last synced: 10 months ago - Pushed: almost 2 years ago - Stars: 3 - Forks: 5

EpistasisLab/imputation

https://www.biorxiv.org/content/early/2017/07/24/167858

Language: Jupyter Notebook - Size: 19.9 MB - Last synced: 10 months ago - Pushed: over 6 years ago - Stars: 9 - Forks: 6

EpistasisLab/qsar-gnn

Language: TeX - Size: 30.6 MB - Last synced: 10 months ago - Pushed: over 2 years ago - Stars: 2 - Forks: 1

EpistasisLab/exploration-trie-tpot

Comparison of evolutionary algorithms within TPOT using a trie to determine their exploratory nature

Language: HTML - Size: 116 MB - Last synced: 10 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

EpistasisLab/TTox Fork of yhao-compbio/TTox

Develop and evaluate a feature selection pipeline for the identification of toxicity targets

Language: Shell - Size: 150 MB - Last synced: 10 months ago - Pushed: almost 2 years ago - Stars: 1 - Forks: 0

EpistasisLab/pmlbr Fork of trangdata/pmlblite

pmlb is an R interface to the Penn Machine Learning Benchmarks data repository

Language: R - Size: 8.01 MB - Last synced: 7 months ago - Pushed: 8 months ago - Stars: 7 - Forks: 0

EpistasisLab/interpret_ehr

Interpretation of machine learning predictions for patient outcomes in electronic health records

Language: Jupyter Notebook - Size: 4.78 MB - Last synced: 10 months ago - Pushed: over 4 years ago - Stars: 6 - Forks: 2

EpistasisLab/EBIC.jl

EBIC - a biclustering algorithm in Julia

Language: Julia - Size: 8.35 MB - Last synced: 3 months ago - Pushed: 5 months ago - Stars: 7 - Forks: 0

EpistasisLab/logistic_PCA

An efficient python implementation of logistic PCA for general use

Size: 0 Bytes - Last synced: 10 months ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

EpistasisLab/ebic Fork of athril/ebic

EBIC - AI-based parallel biclustering algorithm

Language: C++ - Size: 953 KB - Last synced: 3 months ago - Pushed: over 5 years ago - Stars: 19 - Forks: 4

EpistasisLab/latent_phenotype_project

Language: Python - Size: 2.86 MB - Last synced: 8 months ago - Pushed: 9 months ago - Stars: 0 - Forks: 0

EpistasisLab/evolved-stats

A research project using genetic programming to discover and optimize statistical tests.

Language: Jupyter Notebook - Size: 7.07 MB - Last synced: 10 months ago - Pushed: about 6 years ago - Stars: 3 - Forks: 1

EpistasisLab/Conservation-Machine-Learning

Conservation Machine Learning

Language: Python - Size: 33.2 KB - Last synced: 10 months ago - Pushed: almost 2 years ago - Stars: 1 - Forks: 1

EpistasisLab/OMNIREP

The OMNIREP algorithm: Coevolving encodings and representations

Language: Python - Size: 795 KB - Last synced: 10 months ago - Pushed: almost 2 years ago - Stars: 1 - Forks: 2

EpistasisLab/EVE

ENSEMBL VEP on EC2

Size: 8.79 KB - Last synced: 10 months ago - Pushed: over 6 years ago - Stars: 1 - Forks: 1

EpistasisLab/STAR_outliers_analysis

Language: Python - Size: 1.45 MB - Last synced: 10 months ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

EpistasisLab/pennai-bioinformatics

Code to reproduce the experiments in "Evaluating recommender systems for AI-driven biomedical informatics"

Language: Jupyter Notebook - Size: 4.48 MB - Last synced: 3 months ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

EpistasisLab/mrsman

Medical Record System Management

Language: Python - Size: 12.3 MB - Last synced: 10 months ago - Pushed: about 4 years ago - Stars: 0 - Forks: 1

EpistasisLab/mimic3-benchmarks Fork of YerevaNN/mimic3-benchmarks

Python suite to construct benchmark machine learning datasets from the MIMIC-III clinical database.

Language: Python - Size: 822 KB - Last synced: 10 months ago - Pushed: over 4 years ago - Stars: 2 - Forks: 0

EpistasisLab/gecco2017-new-benchmarking-standards

Pages for workshops run by Epistasis Lab members

Size: 801 KB - Last synced: 10 months ago - Pushed: almost 7 years ago - Stars: 3 - Forks: 0

EpistasisLab/pmlb-manuscript

Manuscript for PMLB v1.0

Language: HTML - Size: 3.57 MB - Last synced: about 1 month ago - Pushed: over 3 years ago - Stars: 0 - Forks: 5

EpistasisLab/rebate-benchmark

A centralized repository to benchmark ReBATE performance across a variety of parameter settings and datasets.

Language: Jupyter Notebook - Size: 1.17 GB - Last synced: 3 months ago - Pushed: almost 4 years ago - Stars: 4 - Forks: 1

EpistasisLab/TINY

Tiny Genetic Algorithm (GA) and Tiny Genetic Programming (GP)

Language: Python - Size: 1.95 KB - Last synced: 10 months ago - Pushed: over 5 years ago - Stars: 1 - Forks: 1

EpistasisLab/openmrs-module-fhir Fork of djfunksalot/openmrs-module-fhir

Implements REST and Java APIs to access OpenMRS via FHIR Specification.

Language: Java - Size: 46.8 MB - Last synced: 10 months ago - Pushed: over 4 years ago - Stars: 1 - Forks: 0

EpistasisLab/gecco2019-new-benchmarking-standards

A workshop for improving benchmarking standards in evolutionary computation research.

Size: 378 KB - Last synced: 3 months ago - Pushed: almost 5 years ago - Stars: 0 - Forks: 0

EpistasisLab/penn-lpc-scripts

Scripts that I wrote for use on the Penn LPC

Language: Python - Size: 6.84 KB - Last synced: 10 months ago - Pushed: over 6 years ago - Stars: 2 - Forks: 1

EpistasisLab/openmrs-module-coreapps Fork of openmrs/openmrs-module-coreapps

Provides apps for performing the common tasks

Language: Java - Size: 4.99 MB - Last synced: 10 months ago - Pushed: about 5 years ago - Stars: 0 - Forks: 0

EpistasisLab/mimic-code Fork of MIT-LCP/mimic-code

MIMIC Code Repository: Code shared by the research community for the MIMIC-III database

Language: Jupyter Notebook - Size: 12.1 MB - Last synced: 10 months ago - Pushed: over 5 years ago - Stars: 2 - Forks: 4

EpistasisLab/tpot-kaggle

tpot applications on kaggle datasets

Language: Jupyter Notebook - Size: 53.7 KB - Last synced: 10 months ago - Pushed: over 7 years ago - Stars: 2 - Forks: 4

EpistasisLab/breast-cancer-collection Fork of athril/geo-collection

Collection of different gene expression datasets

Size: 0 Bytes - Last synced: 3 months ago - Pushed: over 6 years ago - Stars: 1 - Forks: 1

EpistasisLab/VEPDB_populator

Population utilities for the VEPDB distributed annotation database, with an annotator written in Python

Language: Python - Size: 257 KB - Last synced: 6 months ago - Pushed: over 6 years ago - Stars: 1 - Forks: 2

EpistasisLab/few Fork of lacava/few

a feature engineering wrapper for sklearn

Language: Python - Size: 562 KB - Last synced: 3 months ago - Pushed: almost 7 years ago - Stars: 1 - Forks: 3