Repositories list

• gtars

  Public
  Performance-critical tools to manipulate, analyze, and process genomic interval data

  lab-project-gtars

  lab-project-gtars

  Rust

  •

  BSD 2-Clause "Simplified" License

  •44 forks•3030 stars•3636 issues•22 pull requests•Updated Sep 29, 2026Sep 29, 2026

• geniml

  Public
  Genomic interval machine learning

  machine-learningrepresentation-learninggenomic-intervals+ 1

  machine-learningrepresentation-learninggenomic-intervalslab-project-geniml

  Python

  •

  BSD 2-Clause "Simplified" License

  •33 forks•2222 stars•1111 issues•22 pull requests•Updated Sep 29, 2026Sep 29, 2026

• bbconf

  Public
  Configuration package for bedbase project

  config-managementpython-apigenomic-intervals+ 1

  config-managementpython-apigenomic-intervalslab-project-bedbase

  Python

  •

  BSD 2-Clause "Simplified" License

  •22 forks•00 stars•11 issue•33 pull requests•Updated Sep 29, 2026Sep 29, 2026

• bedbase

  Public
  Aggregate, analyze, and serve genomic regions.

  genomic-intervalslab-project-bedbase

  genomic-intervalslab-project-bedbase

  Jupyter Notebook

  •00 forks•44 stars•77 issues•00 pull requests•Updated Sep 29, 2026Sep 29, 2026

• awesome-sequence-to-function

  Public
  Links to sequence-to-function models and methods

  00 forks•00 stars•00 issues•44 pull requests•Updated Sep 29, 2026Sep 29, 2026

• awesome-bio-foundation-models

  Public
  Links to biological foundation models

  00 forks•00 stars•00 issues•44 pull requests•Updated Sep 29, 2026Sep 29, 2026

• awesome-atac-analysis

  Public
  Links to ATAC-seq analysis tools

  77 forks•7777 stars•11 issue•33 pull requests•Updated Sep 29, 2026Sep 29, 2026

• conferences

  Public
  AI-curated computational-biology conference + deadline API (conferences.databio.org)

  TypeScript

  •

  MIT License

  •00 forks•00 stars•00 issues•11 pull request•Updated Sep 29, 2026Sep 29, 2026

• bedhost

  Public
  API and UI for BEDbase

  bioinformaticsservergenomics+ 5

  bioinformaticsservergenomicsrest-apibedfastapigenomic-intervalslab-project-bedbase

  TypeScript

  •

  BSD 2-Clause "Simplified" License

  •00 forks•22 stars•1111 issues•22 pull requests•Updated Sep 28, 2026Sep 28, 2026

• bedbase-loader

  Public
  BEDbase GEO bed file uploading

  bioinformatics-pipelinelab-project-bedbase

  bioinformatics-pipelinelab-project-bedbase

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 28, 2026Sep 28, 2026

• researcher-profiles

  Public
  Python

  •

  MIT License

  •00 forks•11 star•11 issue•00 pull requests•Updated Sep 27, 2026Sep 27, 2026

• bedboss

  Public
  Python pipeline for processing BED files for BEDbase

  geobed-filesbed-format+ 2

  geobed-filesbed-formatgenomic-intervalslab-project-bedboss

  Python

  •

  BSD 2-Clause "Simplified" License

  •00 forks•33 stars•1010 issues•22 pull requests•Updated Sep 26, 2026Sep 26, 2026

• BiocRefgetStore

  Public
  BSgenome-compatible interface to RefgetStore for R/Bioconductor

  R

  •

  Other

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 26, 2026Sep 26, 2026

• pypiper

  Public
  Python toolkit for building restartable pipelines

  pythonbioinformaticspipeline+ 2

  pythonbioinformaticspipelinebioinformatics-pipelinepython-toolkit

  Python

  •

  BSD 2-Clause "Simplified" License

  •99 forks•4747 stars•5656 issues•00 pull requests•Updated Sep 26, 2026Sep 26, 2026

• yacman

  Public
  YAML configuration manager

  Python

  •

  BSD 2-Clause "Simplified" License

  •22 forks•88 stars•1010 issues•00 pull requests•Updated Sep 26, 2026Sep 26, 2026

• actions

  Public
  Shared GitHub Actions workflows and actions for lab repositories

  00 forks•00 stars•00 issues•00 pull requests•Updated Sep 25, 2026Sep 25, 2026

• qtl-browser

  Public
  QTL browser for TOPCHeF

  TypeScript

  •00 forks•00 stars•00 issues•11 pull request•Updated Sep 24, 2026Sep 24, 2026

• markmeld

  Public
  A Python package for melding markdown content and YAML structured data

  markdownyamljinja2+ 1

  markdownyamljinja2pandoc

  Python

  •

  BSD 2-Clause "Simplified" License

  •33 forks•88 stars•33 issues•11 pull request•Updated Sep 24, 2026Sep 24, 2026

• onga

  Public
  Python

  •00 forks•11 star•00 issues•00 pull requests•Updated Sep 23, 2026Sep 23, 2026

• hub.bulker.io

  Public
  Bulker registry

  Python

  •

  BSD 2-Clause "Simplified" License

  •11 fork•55 stars•33 issues•11 pull request•Updated Sep 19, 2026Sep 19, 2026

• bedbase-ui

  Public
  a web interface for BEDbase

  lab-project-bedbase

  lab-project-bedbase

  TypeScript

  •00 forks•00 stars•11 issue•00 pull requests•Updated Sep 19, 2026Sep 19, 2026

• bdshack19

  Public
  Coordinating the 2019 Biomedical Data Science Hackathon at UVA

  Jupyter Notebook

  •33 forks•33 stars•88 issues•00 pull requests•Updated Sep 17, 2026Sep 17, 2026

• everyday-genomics

  Public
  Monthly-updated metrics that genomics is entering everyday life

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 2, 2026Sep 2, 2026

• schema.databio.org

  Public
  Repository of JSON-schemas

  JavaScript

  •

  BSD 2-Clause "Simplified" License

  •11 fork•22 stars•11 issue•77 pull requests•Updated Aug 26, 2026Aug 26, 2026

• mm_templates

  Public
  Jinja

  •00 forks•33 stars•00 issues•00 pull requests•Updated Aug 11, 2026Aug 11, 2026

• logmuse

  Public
  Small logging setup package

  Python

  •

  BSD 2-Clause "Simplified" License

  •11 fork•33 stars•00 issues•00 pull requests•Updated Aug 7, 2026Aug 7, 2026

• dockerfiles

  Public
  Sheffield lab dockerfiles

  Shell

  •

  BSD 2-Clause "Simplified" License

  •00 forks•11 star•22 issues•00 pull requests•Updated Jul 24, 2026Jul 24, 2026

• pepatac

  Public
  A modular, containerized pipeline for ATAC-seq data processing

  Python

  •

  BSD 2-Clause "Simplified" License

  •1616 forks•6060 stars•33 issues•44 pull requests•Updated Jul 18, 2026Jul 18, 2026

• bulkers

  Public
  Rust

  •00 forks•77 stars•11 issue•00 pull requests•Updated Jul 10, 2026Jul 10, 2026

• renin_atac

  Public
  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jul 10, 2026Jul 10, 2026