Fact Graph

Implementation of Alpha Fold 3 from the paper: "Accurate structure prediction of biomolecular interactions with AlphaFold3" in PyTorch

FinaleToolkit is a package and standalone program to extract fragmentation features of cell-free DNA from paired-end sequencing data.

LIONHEART detects cancer from whole genome sequenced plasma cell-free DNA.

Terminal eBook Reader with Text-to-Speech

Trios analysis workflow written in Snakemake

Detection of m6A from direct RNA-Seq data

🧬 High-performance VCF file parser and reformatter with VEP annotation support. Converts complex VCF files to analyzable TSV format with intelligent transcript handling.

A bidirectional Markdown to HTML to Markdown converter written in Javascript

A typed, polyglot, functional language

High-quality QR Code generator library in Java, TypeScript/JavaScript, Python, Rust, C++, C.

`timep` is an efficient and accurate state-of-the-art trap-based profiler and flamegraph generator for bash code. `timep` does much more than "providing per-command execution times" -- it maps the …

🤖🕰️ An MCP server that gives language models temporal awareness and time calculation abilities. Teaching AI the significance of the passage of time through collaborative tool development.

The AI coding agent built for the terminal.

online variation graph induction

TradingAgents: Multi-Agents LLM Financial Trading Framework

Python 3.8+ toolbox for submitting jobs to Slurm

BioMCP: Enabling agent-based biomedical R&D

Nano vLLM

mbake is a Makefile formatter and linter. It only took 50 years!

Annotation and Ranking of Structural Variation

Welcome to Sean's Open Source MVP Boilerplate Template for Production-Ready NextJS+Stripe+Supabase App.

Tensor library & inference framework for machine learning

Fully open reproduction of DeepSeek-R1

A minimal copy fastq and fasta reader built for parallel support and paired end processing

Video-based AI memory library. Store millions of text chunks in MP4 files with lightning-fast semantic search. No database needed.

TensorZero is an open-source stack for industrial-grade LLM applications. It unifies an LLM gateway, observability, optimization, evaluation, and experimentation.

Fast approximate string searching

Implementation of the u-index