Araport

ComboTrackSelector

Plugin to allow the co-existence of the Hierarchical and Faceted Track Selectors in the GMOD JBrowse Genome Browser

adama

Adaptible Data And Microservices API

intermine

This is the code base for Thalemine, a data warehouse system based on InterMine and used in Araport, the Arabidopsis Information Portal.

adamalib

A Python library for using Adama

jbrowse-contrib

Configuration and miscellaneous support files for Araport JBrowse installation

generator-aip-science-app

Yeoman Generator for building Science Apps for the Arabidopsis Information Portal.

jbrowse

A modern genome browser built with JavaScript and HTML5.

jbrowse-tabix-howto

Visualizing tabix-indexed files located on the CyVerse Data Store using the JBrowse Genome Browser

CyverseRemoteTracks

JBrowse plugin enabling the ability to dynamically load tracks from data/configurations stored in the Cyverse Data Store

phytozome_webservices

ADAMA adapters for various Phytozome webservices

PMR_API

Adapter for PMR web services.

science_apps_workspace

Drupal module for the Araport Science Apps Workspace.

thalemine

ThaleMine - an InterMine with Arabidopsis genomic data

1001GenomesVariants

JBrowse plugin enabling the ability to enrich the 1001 Genomes Variants track with metadata from 1001genomes.org Master Accession List API

araport-portal

Docker image for the Araport portal.

araport-theme

Arabadopsis Information Portal Theme, a Bootstrap 3 theme based on http://drupal.org/project/bootstrap.

araport_features

Drupal modules developed for Araport functionality.

AraportJBPlugin

Custom JBrowse plugin to map JBrowse/Store/SeqFeature/REST to the Araport Adama API endpoints

atted-displayer

atted_webservices

Illustrative web service for ATTED II coexpression web service

CDN

JavaScript, Cascading Style Sheet Content Delivery Network

deploy-community-tracks

ebi-interaction-viewer-app

Araport demo science app that uses the ADAMA layer to query interaction data from EBI

EnsemblVariants

JBrowse plugin enabling the ability to enrich the Ensembl Variants (VCF) track with metadata from rest.ensemblgenomes.org API

GAG

Generates an NCBI .tbl file of annotations on a genome.

intermine-scripts

All scripts that used to be in the main intermine repository in bio/scripts and intermine/scripts

jcvi-araport11-services

ADAMA adapters for querying Araport11 annotation data

small_orfs_to_jbrowse

ADAMA web-service wrapper to transform "Translated small ORFs" GFF3 data (Hsu et al. 2016) into JBrowse compatible JSON

thalemine-bio-sources

Data Sources for ThaleMine - an InterMine with Arabidopsis genomic data

tree-viewer-app

Viewer app for rendering phylogenetic trees.