Refinery Platform

Login: refinery-platform

Company: null

Location: Worldwide

email:

Blog: http://www.refinery-platform.org

Members

1. David Jones
2. Scott Ouellette
3. Stefan Luger
4. null

Repositories

clodius-galaxy

Galaxy tool wrapper around Clodius: https://github.com/hms-dbmi/clodius

django_docker_engine

Django app that manages the creation of, and proxies requests to, Docker containers.

docker_heatmap-volcano-pca

Docker wrapper around heatmap-volcano-pca

docker_igv_js

A Docker container to wrap IGV.js

galaxy-tools

null

get-reference-genomes

Get reference genomes from UCSC and prepare them for use by IGV.js

heatmap-scatter-dash

Interactive visualizations for differential expression

heatmap-volcano-pca

null

igv-wrapper-for-refinery

Wrap IGV as an AMD which accepts Node IDs

lineup-refinery-docker

Builds a Refinery visualization Docker image for Lineup

neo4j-ontology

Plugins and extensions for Neo4J to handle ontologies

ontology-imports

Ontology batch import definition files

pre-commit-eslint

Mirror of eslint node package for pre-commit.

provvis

Refinery's Provenance Visualization

qualimap-multiqc-refinery-docker

Creates a Docker container wrapping a Refinery visualization for Qualimap in MultiQC

refinery-developer-vis-tool

A basic Refinery-compatible visualization tool to aid prospective Refinery VisualizationTool developers.

refinery-higlass-docker

"Refinery-ified" flavor of the higlass-docker (https://github.com/hms-dbmi/higlass-docker/) project

refinery-jupyter-docker

"Refinery-ified" flavor of the base-notebook here: https://github.com/jupyter/docker-stacks

refinery-platform

The Refinery Platform is a data management, analysis and visualization system for bioinformatics and computational biology applications. The platforms consists of three major components: a data repository with rich metadata capabilities, a workflow engine based on the popular Galaxy system, and visualization tools to support the exploration and interpretation of results at all stages of the analysis process.

sample-data

Sample data sets and generators for Refinery.

satori

SATORI - A System for Ontology-Guided Visual Exploration of Biomedical Data Repositories

shiny-docker-demo

Demonstrates how to wrap a Shiny app for Refinery

solr-synonyms

Scripts for creating and updating synonyms for Solr

solr-synonyms-analyzer

Solr query parser plugin that performs proper query-time synonym expansion.

split-paired-collection

A Galaxy: https://galaxyproject.org/ tool that takes an input Dataset Collection and returns two distinct outputs

tool-api

null

visualization-tools

Track Visualization Tool Annotations that are compatible with Refinery