Difference between revisions of "Tripal"

From GMOD
Jump to: navigation, search
 
(32 intermediate revisions by 4 users not shown)
Line 1: Line 1:
<center>{{#icon: TripalLogo.jpg|Tripal|200|Tripal}}</center>
+
{{Tool data
__NOTITLE__
+
|name=Tripal
 +
|status=mature
 +
|dev=active
 +
|support=active
 +
|type=Database (Chado) web front ends, Database tools, Development Platform (has API)
 +
|platform=linux, unix, os x, web
 +
|about=Tripal is a web front end for [[Chado]] databases, based on the [http://www.drupal.org 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.
  
{{ComponentBox|{{TripalResourcesBoxItem}}|<!--{{ComponentBoxEventsHeader}}||{{GMODAmericas2011BoxItem|2011 GMOD Spring Training|GMOD Spring Training|March 8-12}}-->| | | |}}
+
Features and advantages of Tripal:
{{TocLeft}}
+
  
Tripal is a [[Chado]] database web front end based on a collection of [http://www.drupal.org Drupal] modules.  Tripal is under development at several institutions, including [http://www.bioinfo.wsu.edu The Main Bioinformatics Laboratory] at [http://www.wsu.edu Washington Statue University], the [http://www.usask.ca/ University of Saskatchewan] and the [http://www.genome.clemson.edu/ Clemson University Genomics Institute] (CUGI).  Tripal initially is currently used in several production genome database websites.
+
* Allows rapid development of an online genomic database.
 
+
 
+
The official website for Tripal can be found at [http://tripal.sourceforge.net/ http://tripal.sourceforge.net/].  Here you can find software downloads, documentation, support and links to all things Tripal.
+
 
+
=== Contributing Organizations to Tripal ===
+
Individuals from these organizations have provided design and coding for Tripal
+
 
+
[[Image:150px-WSULogo.png]]
+
[[Image:150px-USLogo.png]]
+
[[Image:150px-CUGILogo.png]]
+
 
+
== Tutorials ==
+
Several tutorials are available through the GMOD website for Tripal.  These tutorials were presented at the GMOD schools.
+
 
+
; Current tutorials
+
* [[Tripal Tutorial (v0.3.1b)]] - The full v0.3.1b tutorial
+
* [[Tripal Tutorial (v0.3.1b VM)]] - for use with the Tripal virtual machine
+
 
+
; Previous Tutorials
+
* [[Tripal Tutorial (pre version 0.3b)]] - from the 2010 GMOD Spring School - Americas.
+
* [[Tripal Tutorial]] - for v0.2 - from the [[2009 GMOD Summer School - Americas]]
+
 
+
== API ==
+
* [http://tripal.sourceforge.net/docs/tripal-0.6x-0.3b/index.html Tripal 0.6.x-0.3b API]
+
* [[Tripal Developer's Handbook]]
+
 
+
==Brief Overview==
+
Upon initial release, Tripal will provide several benefits:
+
* Faster 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.
 
* Site administrators can add non-biological content to their sites and allow editing of content by non-technical users.
 
* Integrates directly with GMOD [[Chado]].
 
* Integrates directly with GMOD [[Chado]].
* Provides visualizations for chado "modules" such as [[Chado Sequence Module|features]], [[Chado Companalysis Module|analyses]], [[Chado Library Module|libraries]], [[Chado Stock Module|stocks]], [[Chado Modules|and others]].
+
* Provides visualizations for Chado "modules" such as [[Chado Sequence Module|features]], [[Chado Companalysis Module|analyses]], [[Chado Library Module|libraries]], [[Chado Stock Module|stocks]], [[Chado Modules|and others]].
 
* Provides an interface for easy editing/updating of data in Chado.
 
* Provides an interface for easy editing/updating of data in Chado.
 
* Provides full text and categorical search capabilities for Chado content.
 
* Provides full text and categorical search capabilities for Chado content.
 
* Can integrate GMOD tools such as [[CMap]] and [[GBrowse]].
 
* Can integrate GMOD tools such as [[CMap]] and [[GBrowse]].
* Integrates with powerful Drupal features like [http://drupal.org/project/views Drupal Views] and [http://drupal.org/project/panels Panels]
+
* Integrates with powerful Drupal features like [http://drupal.org/project/views Drupal views] and [http://drupal.org/project/panels panels]
* Provides fully customizable PHP-based templates to allow for fine-grain control of the look-and-feel of the site.
+
* 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)
 
* Web-based management of Chado (i.e. installation of Chado v1.11 and loading of ontologies)
 
* Loaders for GFF3 and FASTA format files.
 
* Loaders for GFF3 and FASTA format files.
 
* Provides an API to allow for creation of custom extensions by anyone.
 
* Provides an API to allow for creation of custom extensions by anyone.
  
 +
What is Tripal capable of? Check out the [http://tripal.gmod.oicr.on.ca/1.1/ Tripal demo server].
 +
 +
==== Tripal Homepage ====
 +
Get the most up-to-date information about Tripal [http://www.tripal.info here].
 +
|open source=Yes
 +
|licence=GPLv2
 +
|input=[[GFF3]], FASTA, Chado DB, tab-separated data, OBO ontology files
 +
|language=PHP, Javascript, HTML
 +
|use template=Yes
 +
|logo=TripalLogo.png
 +
|contact=spficklin@gmail.com
 +
|mail={{MailingListsFor|Tripal}}
 +
|dl src=The latest development version of Tripal is available at the [https://github.com/tripal/tripal Tripal GitHub Page]
 +
|tutorials=[http://tripal.info/tutorials/v2.x Tripal 2.x User's Guide]
 +
|getting started preamble=Full documentation on installing, configuring, and using Tripal is available from the [http://tripal.info/ Tripal website].
 +
}}
 
[[Category:Chado]]
 
[[Category:Chado]]
 
[[Category:GMOD Components]]
 
[[Category:GMOD Components]]
 
[[Category:Tripal]]
 
[[Category:Tripal]]
 +
{{SemanticLink
 +
|linkurl=http://tripal.info
 +
|linktitle=Tripal Home
 +
|linktype=home page
 +
}}
 +
{{SemanticLink
 +
|linkurl=http://tripal.info/tutorials/v2.x/installation
 +
|linktitle=Download and Install Tripal
 +
|linktype=download
 +
}}
 +
{{InteroperableComponent
 +
|relationship=can embed
 +
|object=GBrowse
 +
}}
 +
{{InteroperableComponent
 +
|relationship=can embed
 +
|object=CMap
 +
}}
 +
{{InteroperableComponent
 +
|relationship=can embed
 +
|object=Galaxy
 +
}}
 +
{{InteroperableComponent
 +
|relationship=provides interface for
 +
|object=Chado
 +
}}

Latest revision as of 16:33, 29 June 2016

Tripal logo
Status
  • Mature release
  • Development: active
  • Support: active
Licence
{{{PAGENAME}}} is open source

GPLv2

Resources
Interoperable Components


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? Check out the Tripal demo server.

Tripal Homepage

Get the most up-to-date information about Tripal here.



Downloads

The latest development version of Tripal is available at the Tripal GitHub Page


Using Tripal

Full documentation on installing, configuring, and using Tripal is available from the Tripal website.



Publications, Tutorials, and Presentations

Tutorials

Tripal 2.x User's Guide


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




More on Tripal

See Category:Tripal



"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. "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. "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. "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. "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. "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.

Facts about "Tripal"RDF feed
Available on platformlinux +, unix +, os x + and web +
Has URLhttp://tripal.info + and http://tripal.info/tutorials/v2.x/installation +
Has descriptionTripal is a web front end for Chado daTripal 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? Check out the Tripal demo server.

Tripal Homepage[edit]

Get the most up-to-date information about Tripal here.
bout Tripal here. +
Has development statusactive +
Has input formatGFF3 +, FASTA +, Chado DB +, tab-separated data + and OBO ontology files +
Has licenceGPLv2 +
Has logoTripalLogo.png +
Has software maturity statusmature +
Has support statusactive +
Has titleTripal Home + and Download and Install Tripal +
Has topicTripal +
Interaction typecan embed + and provides interface for +
InteractorTripal +
Interacts withGBrowse +, CMap +, Galaxy + and Chado +
Is open sourceYes +
Link typedownload +
Tool functionality or classificationDatabase (Chado) web front ends +, Database tools + and Development Platform (has API) +
Written in languagePHP +, Javascript + and HTML +
Has subobjectThis property is a special property in this wiki.Tripal#http://tripal.info +, Tripal#http://tripal.info/tutorials/v2.x/installation +, Tripal +, Tripal +, Tripal + and Tripal +