NOTE: We are working on migrating this site away from MediaWiki, so editing pages will be disabled for now.
Tripal
"api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property. "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property. "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property., "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property., "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
"api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property., "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property., "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.- Mature release
- Development: active
- Support: active
Included in
Contents
About Tripal
Tripal is a web front end for Chado databases, based on the Drupal content management system. Tripal leverages many of the features of Drupal--ability to search and edit content, detail pages for different types of content, customizable page layouts, and so on--to provide users with an intuitive, flexible interface to a database.
Features and advantages of Tripal:
- Allows rapid development of an online genomic database.
- Site administrators can add non-biological content to their sites and allow editing of content by non-technical users.
- Integrates directly with GMOD Chado.
- Provides visualizations for Chado "modules" such as features, analyses, libraries, stocks, and others.
- Provides an interface for easy editing/updating of data in Chado.
- Provides full text and categorical search capabilities for Chado content.
- Can integrate GMOD tools such as CMap and GBrowse.
- Integrates with powerful Drupal features like Drupal views and panels
- Provides fully customizable PHP-based templates to allow users to change the look and feel of their installation
- Web-based management of Chado (i.e. installation of Chado v1.11 and loading of ontologies)
- Loaders for GFF3 and FASTA format files.
- Provides an API to allow for creation of custom extensions by anyone.
What is tripal capable of? Checkout out the Demo instance
Visit the Tripal website.
Downloads
- Download Tripal: http://tripal.info/download
- The latest development version of Tripal is available from the Drupal.org git repositories. Currently Tripal is a sandbox project while it goes through the module application process. For more information regarding the Tripal git repository including common git commands, see Tripal's Drupal.org project page.
To clone the Tripal development GIT repository, use the following command:
git clone --recursive --branch 6.x-1.x http://git.drupal.org/sandbox/spficklin/1337878.git tripal
You can also browse the Tripal GIT repository.
Using Tripal
Full documentation on installing, configuring, and using Tripal is available from the Tripal website.
Documentation
For Developers
Tripal provides an API to help developers who wish to create new Tripal extension modules. The API provides common functions for interacting with Chado, Tripal, and for constructing or editing custom templates for a custom look-and-feel. For more information, see the following links:
Publications, Tutorials, and Presentations
Publications on or mentioning Tripal
- Tripal: a construction toolkit for online genome databases. [1]
Tutorials
- Tripal Tutorial v1.1
- used during the 2013 GMOD Summer School
- Tripal Tutorial (v1.0)
- used during the 2012 GMOD Summer School
- Tripal Tutorial (v0.3.1b)
- The full v0.3.1b tutorial
- Tripal Tutorial (v0.3.1b VM)
- for use with the Tripal virtual machine
- Tripal Tutorial (pre version 0.3b)
- from the 2010 GMOD Spring School
Contacts and Mailing Lists
Mailing List Link | Description | Archive(s) | |
---|---|---|---|
Tripal | gmod-tripal | Tripal-related announcements, questions, and requests for help from developers and the community. | Nabble (2010/05+), Sourceforge |
gmod-tripal-devel | Tripal development list | Nabble, Sourceforge |
Tripal in the wild
Public installations of Tripal:
- Fagaceae Genomics Web
- Citrus Genome Database
- Pulse Crop Genomics and Breeding
- Marine Genomics Project (MG.org)
- Cacao Genome Database
- Genome Database for Vaccinium
- Cool Season Food Legume Genome Database
- Genome Database for Rosaceae
- Hardwood Genomics Project
Tripal Development
Development team
Tripal is under development at several institutions, including the Mainlab Bioinformatics at Washington Statue University, the University of Saskatchewan and the Clemson University Genomics Institute (CUGI).
More on Tripal
See Category:Tripal
- ↑ Cite error: Invalid
<ref>
tag; no text was provided for refs namedPMID:21959868
Raw tool data at Tripal/tool data
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
- "home page" is not in the list of possible values (website, download, source code, public server, demo server, wild URL, documentation, publication, social media, other) for this property.
- "api" is not in the list of possible values (web, linux, os x, unix, windows, vm, cloud) for this property.
Available on platform | web + |
Has URL | http://tripal.info +, http://tripal.info/download +, http://tripal.gmod.oicr.on.ca/1.1/ +, http://www.fagaceae.org +, http://www.citrusgenomedb.org/ +, http://knowpulse2.usask.ca/portal +, http://www.marinegenomics.org/ +, http://www.cacaogenomedb.org/ +, http://www.vaccinium.org/ +, http://www.gabcsfl.org/ +, http://www.rosaceae.org/ +, http://www.hardwoodgenomics.org + and https://drupal.org/sandbox/spficklin/1337878 + |
Has description | Tripal is a web front end for Chado da … Tripal is a web front end for Chado databases, based on the Drupal content management system. Tripal leverages many of the features of Drupal--ability to search and edit content, detail pages for different types of content, customizable page layouts, and so on--to provide users with an intuitive, flexible interface to a database.
Features and advantages of Tripal:
|
Has development status | active + |
Has download URL | http://tripal.info/download + |
Has input format | GFF3 +, FASTA +, Chado DB +, tab-separated data + and OBO ontology files + |
Has licence | GPL3 + |
Has logo | TripalLogo.png + |
Has software maturity status | mature + |
Has support status | active + |
Has title | Fagaceae Genomics Web +, Citrus Genome Database +, Pulse Crop Genomics and Breeding +, Marine Genomics Project (MG.org) +, Cacao Genome Database +, Genome Database for Vaccinium +, Cool Season Food Legume Genome Database +, Genome Database for Rosaceae +, Hardwood Genomics Project + and Tripal page on Drupal.org + |
Has topic | Tripal + |
Has website | http://tripal.info/ + |
Interaction type | can embed + and provides interface for + |
Interactor | Tripal + |
Interacts with | GBrowse +, CMap +, Galaxy + and Chado + |
Is open source | Yes + |
Link type | download +, demo server +, wild URL + and source code + |
Tool functionality or classification | Database (Chado) web front ends +, Database tools + and Development Platform (has API) + |
Written in language | PHP +, Javascript + and HTML + |
Has subobjectThis property is a special property in this wiki. | Tripal#http://tripal.info +, Tripal#http://tripal.info/download +, Tripal#http://tripal.gmod.oicr.on.ca/1.1/ +, Tripal#http://www.fagaceae.org +, Tripal#http://www.citrusgenomedb.org/ +, Tripal#http://knowpulse2.usask.ca/portal +, Tripal#http://www.marinegenomics.org/ +, Tripal#http://www.cacaogenomedb.org/ +, Tripal#http://www.vaccinium.org/ +, Tripal#http://www.gabcsfl.org/ +, Tripal#http://www.rosaceae.org/ +, Tripal#http://www.hardwoodgenomics.org +, Tripal#https://drupal.org/sandbox/spficklin/1337878 +, Tripal +, Tripal +, Tripal + and Tripal + |