refinery-platform Goto Github PK

clodius-galaxy

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

dataframer

Tries to load any file into a pandas DataFrame, with a minimum of configuration, and a focus on bioinformatics

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

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

igv-wrapper-for-refinery

Wrap IGV as an AMD which accepts Node IDs

intervene-refinery-docker

Wrap the Intervene shiny app for Refinery

isa-tab-exporter

AWS API Gateway deployment with backing Lambda used to generate ISA-Tab Archives from POST data containing valid ISA-JSON https://isa-specs.readthedocs.io/en/latest/isajson.html

kompatible

Python wrapper for Kubernetes which matches the interface of Docker

lineup-refinery-docker

Builds a Refinery visualization Docker image for Lineup

multiqc-refinery-docker

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

neo4j-ontology

Plugins and extensions for Neo4J to handle ontologies

ontology-imports

Ontology batch import definition files

package_qualimap_2_2

Qualimap 2 is a platform-independent application written in Java and R that provides both a Graphical User Inteface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data and its derivatives like feature counts.

pre-commit-eslint

Mirror of eslint node package for pre-commit.

provvis

Refinery's Provenance Visualization

qualimap2

Qualimap 2 is a platform-independent application written in Java and R that provides both a Graphical User Inteface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data and its derivatives like feature counts.

refinery-deployment

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.

refinery-stats

Altair code for Refinery Stats plots.

refinery-utility-visualization

sample-data

Sample data sets and generators for Refinery.

satori

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