Hundreds of agent skills for medical research, including protocol design, data analysis, evidence insights, and academic writing.

MLX-VLM is a package for inference and fine-tuning of Vision Language Models (VLMs) on your Mac using MLX.

A ready-to-fork Claude Code template for academics using LaTeX/Beamer + R. Multi-agent review, quality gates, adversarial QA, and replication protocols.

Simulation framework for the estimation of local coverages from long-read DNA sequencing

Persistent file-based planning for AI coding agents and long-running tasks. Crash-proof markdown plans, session recovery after /clear and compaction, per-turn re-injection against context rot, dete…

Clair-Mosaic - a deep-learning method for long-read mosaic small variant calling

Guess till correct: Gungnir codec enabling high error-tolerance and low-redundancy DNA storage through substantial computing power

QueryPerformanceCounter计时器，纯汇编，不用msvcrt，只用kernel32和user32

LongcallD: joint calling and phasing of small, structural and mosaic variants from long reads

Variant calling pipeline designed for Q20+ ONT long-reads

HitSV: Maximizing discovery of structural variants across sequencing technologies

Mumemto: multi-MUM and MEM finding across pangenomes

Genome size estimation from long read overlaps

ClusterV: finding HIV quasispecies and drug resistance from ONT sequencing data

Neural-network consensus polishing and variant calling for Oxford Nanopore sequencing data

de novo variant calling in trio using Nanopore long-reads

Governome - Towards a new standard in genomic data privacy: a realization of owner-governance

HapKled: a haplotype-aware structural variant calling approach for Oxford Nanopore sequencing data

EPInformer workflows for gene-expression prediction from DNA sequence, epigenomic signals, and chromatin contacts.

Data science analysis of the tweets of U.S. congress members, 2017-2023, using R, Python & PostgreSQL

Simple pileup-based variant caller

Haplotype-specific somatic copy number aberrations/profiling from long reads sequencing data

This repository provides cytogenetics related datasets to investigate the semantic segmentation

ClairS-TO - a deep-learning method for tumor-only somatic variant calling

Clair3-RNA - a long-read small variant caller for RNA sequencing data

Copy number caller for long read data including SNV utilization

LLM inference in C/C++

🐙 Guides, papers, lessons, notebooks and resources for prompt engineering, context engineering, RAG, and AI Agents.