Repositories list

• automation-registry

  Public
  Golden Helix Server workflow automation and application registry

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 14, 2026Aug 14, 2026

• ChakraCore

  Public
  ChakraCore is an open source Javascript engine with a C API.

  JavaScript

  •

  MIT License

  •1.2k1.2k forks•00 stars•00 issues•00 pull requests•Updated Aug 4, 2026Aug 4, 2026

• vsagent

  Public
  VSAgent: web-mode fork of Orca for running Claude Code / Codex / Gemini on Linux servers. By Golden Helix.

  TypeScript

  •

  MIT License

  •3.5k3.5k forks•00 stars•00 issues•00 pull requests•Updated Jul 29, 2026Jul 29, 2026

• sentieon-secondary-analysis

  Public
  Tasks and workflows for running a variety of secondary analyses with Sentieon on VSWarehouse, including short- and long-read capabilities.

  Shell

  •

  MIT License

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jul 23, 2026Jul 23, 2026

• gh-agent-context

  Public
  Agent grounding context: docs, examples, CLI tools, and agentic instructions for customizing the VSWarehouse platform

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jul 21, 2026Jul 21, 2026

• server-deployment

  Public
  Golden Helix VSWarehouse cloud server deployment scripts

  HCL

  •

  Other

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 30, 2026Jun 30, 2026

• cohort-analysis

  Public
  Generate Gautil Variant Frequence Cohorts

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 23, 2026Jun 23, 2026

• pacbio-ptcp

  Public
  PacBio PureTarget Carrier Panel Workflow and Tasks for the Golden Helix Server

  JavaScript

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 8, 2026Jun 8, 2026

• secondary-analysis-util

  Public
  Python

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

• workspaces-images

  Public
  Shell

  •

  Other

  •332332 forks•00 stars•00 issues•00 pull requests•Updated May 27, 2026May 27, 2026

• acmetk

  Public
  ACME Toolkit

  Python

  •

  MIT License

  •55 forks•00 stars•00 issues•00 pull requests•Updated May 20, 2026May 20, 2026

• workspaces-core-images

  Public
  Shell

  •

  Other

  •169169 forks•00 stars•00 issues•00 pull requests•Updated May 14, 2026May 14, 2026

• KasmVNC

  Public
  Modern VNC Server and client, web based and secure

  C++

  •

  GNU General Public License v2.0

  •448448 forks•00 stars•00 issues•00 pull requests•Updated May 14, 2026May 14, 2026

• noVNC

  Public
  VNC client web application

  JavaScript

  •

  Other

  •2.6k2.6k forks•00 stars•00 issues•00 pull requests•Updated May 14, 2026May 14, 2026

• raredisease-vsw3

  Public
  Port of nf-core Rare Disease workflow to VSWarehouse 3 workflow infrastructure.

  Shell

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 14, 2026Apr 14, 2026

• pacbio-wdl-somatic

  Public
  Golden Helix, Inc. infrastructure for running PacBio WDL Somatic pipeline

  WDL

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 14, 2026Apr 14, 2026

• acmetk-1

  Public
  ACME Toolkit

  Python

  •

  MIT License

  •55 forks•00 stars•00 issues•00 pull requests•Updated Apr 14, 2026Apr 14, 2026

• vspipeline-resources

  Public
  Tasks for running VSPipeline as part of existing secondary analysis workflows.

  Python

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

• htslib

  Public
  C library for high-throughput sequencing data formats. This is fork to support MSVC

  C

  •

  Other

  •472472 forks•11 star•00 issues•00 pull requests•Updated Jan 29, 2026Jan 29, 2026

• archer-integraton

  Public
  Integration workflow and tasks for Archer Analysis Server for Golden Helix Server

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 23, 2026Jan 23, 2026

• sitemap-generator-cli

  Public
  Creates an XML-Sitemap by crawling a given site.

  JavaScript

  •

  MIT License

  •4343 forks•00 stars•00 issues•00 pull requests•Updated Jan 22, 2026Jan 22, 2026

• pacbio-wdl

  Public
  PacBio WGS WDL pipelines for the Golden Helix server workflow runner

  WDL

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 6, 2026Jan 6, 2026

• expansionhunter

  Public
  Open source ExpansionHunter

  C++

  •

  Apache License 2.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 10, 2025Dec 10, 2025

• sentieon-long-reads

  Public
  Sentieon long-read pipelines for the Golden Helix server workflow runner

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Nov 24, 2025Nov 24, 2025

• sentieon-short-reads

  Public
  Sentieon short-read pipelines for the Golden Helix server workflow runner

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 24, 2025Nov 24, 2025

• PrimateAI-3D

  Public
  Python

  •

  Other

  •1212 forks•00 stars•00 issues•00 pull requests•Updated Nov 14, 2025Nov 14, 2025

• run-vspipeline

  Public
  Create projects with VSPipeline tasks for the Golden Helix server workflow runner

  Python

  •11 fork•00 stars•00 issues•00 pull requests•Updated Oct 29, 2025Oct 29, 2025

• basespace-integraton

  Public
  Download tasks for Illumina BaseSpace for the Golden Helix Server

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 26, 2025Aug 26, 2025

• udocker

  Public
  A basic user tool to execute simple docker containers in batch or interactive systems without root privileges.

  Python

  •

  Apache License 2.0

  •166166 forks•00 stars•00 issues•00 pull requests•Updated Aug 22, 2025Aug 22, 2025

• code-server

  Public
  VS Code in the browser

  TypeScript

  •

  MIT License

  •6.8k6.8k forks•00 stars•00 issues•00 pull requests•Updated Aug 17, 2025Aug 17, 2025