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Starred repositories

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constrained nonlinear optimization for scientific machine learning, UQ, and AI

Python 488 52 Updated Nov 3, 2025

ClickHouse® is a real-time analytics database management system

C++ 44,312 7,860 Updated Nov 28, 2025

🔎 Open source distributed and RESTful search engine.

Java 11,955 2,327 Updated Nov 27, 2025

A Julia package for creating publication-ready tables in HTML, docx, LaTeX and Typst

Julia 97 3 Updated Nov 15, 2025

A markup-based typesetting system that is powerful and easy to learn.

Rust 48,629 1,330 Updated Nov 27, 2025

A Python package to assess and improve fairness of machine learning models.

Python 2,167 475 Updated Nov 14, 2025

Open Targets python framework for post-GWAS analysis

Jupyter Notebook 49 15 Updated Nov 27, 2025

A tool to create visual HTML reports from collections of CSV/TSV tables

Rust 616 38 Updated Nov 27, 2025

This repository provides a set of Python functions to simplify working with gnomAD Hail Tables. It includes tools for data access, filtering, and analysis.

Jupyter Notebook 11 1 Updated Sep 19, 2025

🤖 A Python library for learning and evaluating knowledge graph embeddings

Python 1,922 210 Updated Nov 27, 2025

Analyses conducting GWAS across the UKBB diverse superpopulations

Python 61 27 Updated Oct 22, 2025

Buckaroo - The data table UI for Notebooks. Quickly explore dataframes, scroll through dataframes, search, sort, view summary stats and histograms. Works with Pandas, Polars, Jupyter, Marimo, VSCod…

TypeScript 647 14 Updated Nov 11, 2025

annotate a VCF with other VCFs/BEDs/tabixed files

Go 391 56 Updated Aug 30, 2025

some small helpers used in many scripts - Liux, osX, Windows and WINE Build

Python 3 1 Updated Nov 27, 2025

A minimalist tree plotting library using toyplot graphs

Jupyter Notebook 184 31 Updated Nov 26, 2025

Survival analysis with PyTorch

Python 939 206 Updated Sep 4, 2024

🔩 Like builtins, but boltons. 250+ constructs, recipes, and snippets which extend (and rely on nothing but) the Python standard library. Nothing like Michael Bolton.

Python 6,791 375 Updated Oct 4, 2025

Python package built to ease deep learning on graph, on top of existing DL frameworks.

Python 14,151 3,057 Updated Jul 31, 2025

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

Nim 297 44 Updated Nov 14, 2025

genotype :: ped correspondence check, ancestry check, sex check. directly, quickly on VCF

Jupyter Notebook 144 40 Updated Jul 14, 2025

Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata

HTML 58 7 Updated Feb 17, 2022

Eigen tools by Nick Patterson and Alkes Price lab

C 193 63 Updated Nov 3, 2023

GenoTools: Advanced Genotype Data Analysis A robust suite for processing genotype data, offering genotype calling (.idat to PLINK), comprehensive sample/variant QC, and ancestry estimation. Ideal f…

Python 30 8 Updated Nov 6, 2025
Jupyter Notebook 12 Updated Nov 27, 2025

simplejson is a simple, fast, extensible JSON encoder/decoder for Python

Python 1,698 351 Updated Sep 26, 2025

Real-time stream processing for python

Python 1,286 150 Updated Nov 22, 2024

torch-molecule is a deep learning package for molecular discovery, designed with an sklearn-style interface for property prediction, inverse design and representation learning.

Python 300 37 Updated Oct 8, 2025

Fine-mapping with infinitesimal effects

C++ 20 6 Updated May 27, 2025
Python 31 3 Updated Nov 24, 2025
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