Semantic version control — entity-level diffs, blame, and impact analysis on top of git. 26 languages via tree-sitter. Built for coding agents.

CLIMB documentation

Systematic search of all known anti-phage systems.

Digital Twin

A PDF viewer that seamlessly integrates with any JavaScript project

Download FASTQ files from SRA or ENA repositories.

Heavily optimized library for DEFLATE/zlib/gzip compression and decompression

RawHash can accurately and efficiently map raw nanopore signals to reference genomes of varying sizes (e.g., from viral to a human genomes) in real-time without basecalling. Described by Firtina et…

A battery-included, POSIX-compatible, generative shell

Microbial ecological network visualization clustering

Bacterial BERT short read classifier

Terminal based IDE & text editor: easy, powerful and fast

 This project is dedicated to collecting high-quality macOS software and organizing them systematically by different categories for easy search and use.

Rapid & standardized genome annotation using protein structural information

Jan is an open source alternative to ChatGPT that runs 100% offline on your computer.

Open-source LLM knowledge platform: turn raw documents into a queryable RAG, an autonomous reasoning agent, and a self-maintaining Wiki.

Fast approximate string searching

The open source coding agent.

Repository to host tool-specific module files for the Nextflow DSL2 community!

A tool for protein-based virus clustering

Book about interpretable machine learning

🏔 coverage extraction from BAM/CRAM files, supporting targets 📊  

Fetch, filter, and explore microbial metadata from NCBI with ease.

Documentation that simply works

An open-source coding helper. Very friendly!

A bioinformatics software focused on quality control based on species criteria