Discover galaxyproject/alignment-pipeline Open Source project

A collection of Galaxy-related training material

1,342

training-material

Tool Shed repositories maintained by the Intergalactic Utilities Commission

305

tools-iuc

Ongoing analysis of COVID-19 using Galaxy, BioConda and public research infrastructures

161

SARS-CoV-2

Jupyter Notebook

128

ansible-postgresql

An Ansible role for managing a PostgreSQL server

galaxy-hub

planemo

Command-line utilities to assist in developing Galaxy and Common Workflow Language artifacts - including tools, workflows, and training materials.

A Python library for interacting with the Galaxy API

bioblend

Ansible role for installing and managing the Slurm Workload Manager

ansible-slurm

An Ansible role for managing a Galaxy server

admin-training

Galaxy Admin Training

HCL

ansible-galaxy

Easily launch cloud applications.

cloudlaunch

Minimal setup required to run Galaxy under Kubernetes

galaxy-helm

Distributed job execution application built for Galaxy

pulsar

Contains a set of Galaxy Tools mostly written by the Galaxy Team.

tools-devteam

Easily create and manage compute clusters on any Cloud.

cloudman

Ansible Playbook for usegalaxy.org

usegalaxy-playbook

Galaxy Workflows maintained by the Intergalactic Workflow Commission

iwc

Library for managing Galaxy plugins - tools, index data, and workflows.

ephemeris

Handy command line utility for Galaxy administrators 🚀

gxadmin

Galaxy Language Server to help in Galaxy (https://galaxyproject.org/) tool wrappers development.

galaxy-language-server

A collection of simple Ansible roles for common (mostly system) tasks

ansible-common-roles

Build components for CloudMan, Galaxy on the Cloud, or Galaxy Server

galaxy-cloudman-playbook

blend4j

blend4j is a JVM partial reimplementation of the Python library bioblend for interacting with Galaxy, CloudMan, and BioCloudCentral.

Java

ansible-galaxy-tools

An Ansible role for automated installation of tools from a Tool Shed into Galaxy.

Galaxy process management and system administration tools

gravity

Total Perspective Vortex provides an installable set of dynamic rules for the Galaxy application that can route entities (Tools, Users, Roles) to appropriate job destinations based on a configurable yaml file.

total-perspective-vortex

cache packages permanently

cargo-port

Subset of Galaxy (http://galaxyproject.org/) core code designed to be used as a library.

galaxy-lib

Galaxy Github repository BETA 1. May be destroyed and recreated if post-conversion problems are found (but post-conversion commits on this repo will be reapplied to any recreations). Scary disclaimer aside, so far so good! Full details:

galaxy-beta1

Awesome resources related to Galaxy project

awesome-galaxy

infrastructure-playbook

Ansible playbook for managing Galaxy infrastructure. For the playbook managing Galaxy itself, see https://github.com/galaxyproject/usegalaxy-playbook/

usegalaxy-tools

usegalaxy.* common tools

A simple Ansible role for managing PostgreSQL objects (users, groups, databases, and privileges).

ansible-postgresql-objects

Ansible roles to configure assorted compontents for an Ubuntu VM or container configured with https://github.com/galaxyproject/ansible-galaxy with production services including nginx, uwsgi, supervisor, protftp, and slurm.

ansible-galaxy-extras

An Ansible role for installing and configuring CernVM-FS (CVMFS)

ansible-cvmfs

planemo-machine

A packer.io configuration for building out Galaxy (http://galaxyproject.org/) tool development environments.

Simon's Data Club - Reference data for Galaxy servers

idc

An Ansible playbook for building a Galaxy container for Kubernetes.

galaxy-docker-k8s

Planemo scripting to monitor repositories and register tool containers.

planemo-monitor

gxformat2

Galaxy Workflow Format 2

An Ansible role for building a machine image for CloudMan.

ansible-cloudman-image

A user interface for the cloudlaunch app

cloudlaunch-ui

TypeScript

starforge

Build Galaxy dependencies, wheels, and other things, in Docker (and other things)

Galaxy XML tool wrapper XSD

Galaxy-XSD

An Ansible role for managing an nginx server.

small-scale-galaxy-admins

ansible-nginx

Reusable Training Infrastructure as a Service

tiaas2

Galaxy Communities Dock aka Galaxy Codex: catalog of Galaxy resources (tools, training, workflows)

galaxy_codex

Travis scripts to unify and ease the testing of Galaxy favors

galaxy-flavor-testing

Makefile

galaxy-upload

Galaxy Upload Utility for the CLI

Test, deploy, or lint changed Galaxy tools or workflows using Planemo.

planemo-ci-action

A PHP API for interacting with Galaxy

blend4php

PHP

galaxy-tours

Collection of Galaxy-tours

ansible-galaxy-toolshed

An Ansible role for managing a Galaxy (http://galaxyproject.org) Tool Shed server. For a role to install Galaxy itself, see https://github.com/galaxyproject/ansible-galaxy

Galaxy's sequence utilities are a set of Python modules for reading, analyzing, and converting sequence formats.

sequence_utils

Scripts and queries for inspecting Galaxy usage data.

usage-metering

Jupyter Notebook

ansible-pulsar

An Ansible role for managing a Pulsar (https://github.com/galaxyproject/pulsar) server.

Ansible role for installing and configuring ProFTPD for Galaxy

galaxy-tool-repository-template

seek-bzip2

ansible-proftpd

Build Python wheels from recipes using cibuildwheel

wheelforge

A Python-packaged version of EDAM Ontology Data (http://edamontology.org/)

edam_data

An Ansible role for installing Galaxy Interactive Environments

ansible-interactive-environments

Webserver for Planemo Training Development Kit

ptdk

Galaxy requirements for installing Tools from the Tool Shed

docker-galaxy-requirements

Dockerfile

galaxy-maps

dockstore-galaxy-interface

Dockstore Plugin for Galaxy Workflows

Java

cloudauthz

An application for managing structured metadata about Galaxy tools.

gx-it-proxy

JavaScript

gx-tool-db

An Ansible role for managing a Miniconda installation.

ansible-miniconda

ansible-galaxy-os

An Ansible role is for configuring the base operating system useful for running Galaxy.

tpv-shared-database

A shared database of rules for Total Perspective Vortex used by the usegalaxy.* federation.

gxabm

Scripts for automating tasks in Galaxy

Build recipes for Galaxy Starforge

starforge-recipes

Ansible role for installing and managing the GNU Mailman 3 suite

ansible-mailman3

Proper Prior Planning Prevents Poorly Performed PRs...Probably

pulsar-helm

Helm charts for Pulsar

Smarty

Conda recipes maintained by the Galaxy IUC.

conda-iuc

Ansible role for installing, configuring, and managing OpenDKIM

ansible-opendkim

Homebrew tap for Tool Shed packages. (Experimental and work in progress).

jxtx

JavaScript

homebrew-toolshed

Ruby

ansible-cloudman-database

An Ansible role for setting up PostgreSQL database for use with Galaxy CloudMan.

hack-the-galaxy-gcc2017

ansible-tiaas2

Ansible role for deploying TIaaS2

An application registry for CloudLaunch

cloudlaunch-registry

galaxyproject.github.io

Informational repository, highlighting the code offerings of Galaxyproject

This role is used to setup Galaxy for use with CloudMan.

ansible-cloudman-galaxy-setup

gxyarchiver

An Ansible role for setting up Galaxy Trackster.

ansible-trackster

galaxy_mentor_network

Galaxy Mentor Network

SCSS

homebrew-tap

A Homebrew (http://brew.sh/) tap for Galaxy (http://galaxyproject.org/) related software.

Ruby

gxy.io

The gxy.io link shortening service

Test data files used by Galaxy.

TIS_methods_review

Jupyter Notebook

galaxy-test-data

Script that automates merging Galaxy.

gsoc

galaxy-merger

A project containing database created with the gx-tool-db tool.

galaxytutorial-ismb17

100

gx-tool-db-project