Griffan

VerifyBamID

VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.

FASTQuick

Ultra Fast NGS Data QC Tool

avogadrolibs

Avogadro libraries provide 3D rendering, visualization, analysis and data processing useful in computational chemistry, molecular modeling, bioinformatics, materials science, and related areas.

bioinformatics

:microscope: Path to a free self-taught education in Bioinformatics!

griffan.github.io

My personal webpage

popscle

(NOTE: This is a development fork, please refer to official repo at statgen: https://github.com/statgen/popscle) Freemuxlet methods and auxilary tools

YHap

A population model for probabilistic assignment of Y haplogroups from sequencing data and chip data

awesome-nextflow

A curated list of nextflow based pipelines

bioconda-recipes

Conda recipes for the bioconda channel.

Complete-Striped-Smith-Waterman-Library

document.ai

基于向量数据库与GPT3.5的通用本地知识库方案(A universal local knowledge base solution based on vector database and GPT3.5)

dotfiles

Settings for various tools I use.

DRAGMAP

DRAGEN open-source mapper

fastbook

The fastai book, published as Jupyter Notebooks

gatk4-germline-snps-indels

Workflow for germline short variant discovery using GATK4

gpt-crawler

Crawl a site to generate knowledge files to create your own custom GPT from a URL

gpt4all

gpt4all: a chatbot trained on a massive collection of clean assistant data including code, stories and dialogue

graph-genomics-review

Pangenome graphs (review article on graph-based pangenomic methods)

HG002_Data_Freeze_v1.0

Human Pangenome Reference Consortium - HG002 Data Freeze (v1.0)

Magnum-NLC2CMD

Magnum-NLC2CMD is the winning solution for the NeurIPS 2020 NLC2CMD challenge.

privateGPT

Interact with your documents using the power of GPT, 100% privately, no data leaks

PRML

PRML algorithms implemented in Python

quivr

Dump all your files and thoughts into your GenerativeAI Second Brain and chat with it

snakepipes

Customizable workflows based on snakemake and python for the analysis of NGS data

taskflow

A General-purpose Parallel and Heterogeneous Task Programming System

Tensor-Puzzles

Solve puzzles. Improve your pytorch.

UncertaintyRNA

This github repository contains code to reproduce the analysis in our paper "Variability in estimated gene expression among commonly used RNA-seq pipelines"

vimrc

The ultimate Vim configuration (vimrc)

whisper.cpp

Port of OpenAI's Whisper model in C/C++

workflow