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https://github.com/galaxyproject/awesome-galaxy

Awesome resources related to Galaxy project
https://github.com/galaxyproject/awesome-galaxy

List: awesome-galaxy

hacktoberfest

Last synced: 16 days ago
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Awesome resources related to Galaxy project

Host: GitHub
URL: https://github.com/galaxyproject/awesome-galaxy
Owner: galaxyproject
Created: 2016-08-26T09:28:52.000Z (over 8 years ago)
Default Branch: master
Last Pushed: 2022-09-17T06:11:53.000Z (over 2 years ago)
Last Synced: 2024-10-29T16:57:11.252Z (about 2 months ago)
Topics: hacktoberfest
Homepage:
Size: 1.66 MB
Stars: 11
Watchers: 22
Forks: 8
Open Issues: 0
Metadata Files:
- Readme: README.md

Awesome Lists containing this project

ultimate-awesome - awesome-galaxy - Awesome resources related to Galaxy project. (Other Lists / Monkey C Lists)

README

        

## Awesome Galaxy

> A curated list of awesome things related to [Galaxy](https://galaxyproject.org)

A community project to get an overview about the Galaxy project

- [Resources](#resources)

    - [Core Resources](#core-resources)

    - [API](#api)

    - [Job Portal](#job-portal)

    - [Community](#community)

    - [Conferences](#conferences)

    - [Vimeo Channels](#vimeo-channels)

    - [Tutorials and Trainings](#tutorials-and-trainings)

    - [Tools](#tools)

- [Admins](#admins)

- [Virtual Research Environments](#virtual-research-environments)

# Resources

### Core

- [Official Wiki](https://galaxyproject.org/)

- [Release Notes](https://docs.galaxyproject.org/en/master/releases/index.html)

- [GitHub Home](https://github.com/galaxyproject)

- [Core Repo](https://github.com/galaxyproject/galaxy)

- [Roadmap](https://github.com/galaxyproject/galaxy/projects/8)

### API

- [Quickstart](https://docs.galaxyproject.org/en/latest/api/quickstart.html)

- [API wiki](https://galaxyproject.org/develop/api/)

- [API Reference](https://docs.galaxyproject.org/en/master/api_doc.html)

- [Python API bindings](https://bioblend.readthedocs.io/en/latest/)

- [Java API bindings](https://github.com/galaxyproject/blend4j)

- [PHP API bindings](https://github.com/galaxyproject/blend4php)

- [JavaScript API binding](https://github.com/galaxyproject/galaxy/tree/dev/client/galaxy/scripts/mvc)

- [CLI access to Galaxy](https://github.com/galaxy-iuc/parsec/)

- [nebulizer - Command-line utilities to help with managing users, data libraries and tools in a Galaxy instance](https://github.com/pjbriggs/nebulizer)

- [Golang API bindings](https://pkg.go.dev/github.com/brinkmanlab/blend4go)

- [VueJS API bindings](https://github.com/brinkmanlab/galaxy-client/)

### Job Portal

- [Galaxy is Hiring](https://galaxyproject.org/galaxy-is-hiring/)

### Community

- [Twitter](https://twitter.com/galaxyproject)

- [Official Gitter channel](https://gitter.im/galaxyproject/Lobby)

- [IRC channel](https://galaxyproject.org/support/irc/)

### Conferences

- [GCC](https://galaxyproject.org/gcc/)

- [European Galaxy days](https://galaxyproject.org/events/2018-europe-dev/)

### Vimeo Channels

- [Vimeo](https://vimeo.com/galaxyproject)

- [YouTube](https://www.youtube.com/channel/UCwoMMZPbz1L9AZzvIvrvqYA)

### Tutorials and Trainings

- [Users](http://training.galaxyproject.org)

- [Admin](http://galaxyproject.github.io/training-material/topics/admin/)

- [Developers](http://galaxyproject.github.io/training-material/topics/dev/)

### Tools

- [Intro](https://galaxyproject.org/tools/)

- [Installing tools](https://galaxyproject.org/admin/tools/add-tool-from-toolshed-tutorial/)

- [Building tools](https://planemo.readthedocs.io/en/latest/writing_standalone.html)

- [ToolShed](https://toolshed.g2.bx.psu.edu)

- [Test ToolShed](https://testtoolshed.g2.bx.psu.edu)

- [usegalaxy.eu tools](https://github.com/usegalaxy-eu/usegalaxy-eu-tools)

- [usegalaxy.* tools](https://github.com/galaxyproject/usegalaxy-tools)

- [managing tools with Ephemeris](https://github.com/galaxyproject/ephemeris)

#### Tool development

- [Galaxy Language Server](https://github.com/galaxyproject/galaxy-language-server/) - [LSP](https://microsoft.github.io/language-server-protocol/) implementation for Galaxy Tool XML wrappers

- Galaxy Tools (Visual Studio Code Extension) - uses the Galaxy Language Server. Available at:

  - [Visual Studio Code Marketplace](https://marketplace.visualstudio.com/items?itemName=davelopez.galaxy-tools)

  - [Open VSX](https://open-vsx.org/extension/davelopez/galaxy-tools)

#### Tool development repositories

- [IUC tools](https://github.com/galaxyproject/tools-iuc)

- [Björn Grüning repo](https://github.com/bgruening/galaxytools)

- [Galaxy devteam repo](https://github.com/galaxyproject/tools-devteam)

- Peter Cock's repos:

  - [blast repo](https://github.com/peterjc/galaxy_blast)

  - [pico repo](https://github.com/peterjc/pico_galaxy)

  - [mira repo](https://github.com/peterjc/galaxy_mira)

- [ENCODE tools](https://github.com/modENCODE-DCC/Galaxy)

- [Biopython repo](https://github.com/biopython/galaxy_packages)

- [Galaxy Proteomics repo](https://github.com/galaxyproteomics/tools-galaxyp)

- [Colibread Galaxy Tools](https://github.com/genouest/tools-colibread)

- [Greg von Kuster's repo](https://github.com/gregvonkuster/galaxy-csg)

- [EI repo](https://github.com/TGAC/earlham-galaxytools)

- [AAFC-MBB Canada repo](https://github.com/AAFC-MBB/Galaxy/tree/master/wrappers)

- [Mark Einon's repo](https://github.com/einon/galaxy-tools)

- [National Microbiology Laboratory's repo](https://github.com/phac-nml/galaxy_tools)

- [Computational Chemistry](https://github.com/galaxycomputationalchemistry)

- [Workflow4Metabolomics repo**s**](https://github.com/workflow4metabolomics)

- [Fiona Brinkman Lab repo](https://github.com/brinkmanlab/galaxy-tools)

#### Tool Dependencies

- [planemo-monitor](https://github.com/galaxyproject/planemo-monitor)

- [BioContainers/multi-package-containers](https://github.com/BioContainers/multi-package-containers)

- [BioContainers](https://quay.io/organization/biocontainers)

- [Bioconda recipes](https://github.com/bioconda/bioconda-recipes/)

# Workflows

- [Intergalactic Workflow Commision](https://github.com/galaxyproject/iwc)

- [Workflow testing](https://github.com/usegalaxy-eu/workflow-testing)

# Admins

- [gxadmin - shell tools](https://github.com/usegalaxy-eu/gxadmin)

- [Galaxy terraform provider](https://registry.terraform.io/providers/brinkmanlab/galaxy/latest)

- [Galaxy K8s metrics](https://github.com/CloudVE/galaxy-docker-k8s-metrics)

- [Ansible Docker boot](https://github.com/CloudVE/ansible-docker-boot)

# Deployment

### Kubernetes

- [Galaxy Helm](https://github.com/galaxyproject/galaxy-helm)

- [GalaxyKubeMan Helm](https://github.com/galaxyproject/galaxykubeman-helm)

- [Galaxy CVMFS CSI Helm](https://github.com/CloudVE/galaxy-cvmfs-csi-helm)

- [CloudMan Helm](https://github.com/CloudVE/cloudman-helm)

- [CloudLaunch Helm](https://github.com/CloudVE/cloudlaunch-helm)- 

# Virtual Research Environments

### Virtual Machines

- [Virtual Galaxy Compute Nodes](https://github.com/usegalaxy-eu/vgcn)

- [Planemo Machine](https://github.com/galaxyproject/planemo-machine)

### Docker containers

- [Galaxy Docker](https://github.com/bgruening/docker-galaxy-stable)

- [Galaxy Docker compose](https://github.com/bgruening/docker-galaxy-stable/tree/master/compose)

- [NGS-preprocessing](https://github.com/bgruening/docker-galaxy-ngs-preprocessing)

- [GraphClust - RNA structural clustering](https://github.com/BackofenLab/docker-galaxy-graphclust)

- [RNA workbench](https://github.com/bgruening/galaxy-rna-workbench)

### Cloud infrastructure

- [CloudBridge](https://github.com/CloudVE/cloudbridge)

- [CloudLaunch server](https://github.com/galaxyproject/cloudlaunch)

- [Cloudlaunch UI](https://github.com/galaxyproject/cloudlaunch-ui)

- [CloudLaunch CLI](https://github.com/CloudVE/cloudlaunch-cli)

- [CloudMan server](https://github.com/galaxyproject/cloudman)

- [CloudMan UI](https://github.com/CloudVE/cloudman-ui)

- [Galaxy Cloud Runner](https://github.com/CloudVE/galaxycloudrunner)

- [AWS instance types](https://github.com/CloudVE/aws-instance-types)