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Lacey Sanderson 91c0e33ad9 API: Added Additional documentation to the various core chado api hace 11 años
docs 8a898014b8 Renamed branch from 7.x-1.x to 7.x-2.x. Also merged bug fixes from 6.x-1.x hace 11 años
tripal_analysis abe60dfdfb MViews no longer get removed on module uninstall hace 11 años
tripal_api b2d20ff7b2 API: Removed api module and re-instated the tripal_core dbxref/relationship apis, moved the new properties api into the tripal_core.properties.api.inc file with yet again new names. Not backwards compatible hace 11 años
tripal_bulk_loader 49527af90a Fixed type in .install file for all modules. Updated tripal_genetic templates. Working on ND module hace 11 años
tripal_contact ff84d63214 API: Split up massive chado api into multiple files and re-named all core api files to be consistent hace 11 años
tripal_core 91c0e33ad9 API: Added Additional documentation to the various core chado api hace 11 años
tripal_cv abe60dfdfb MViews no longer get removed on module uninstall hace 11 años
tripal_db 49527af90a Fixed type in .install file for all modules. Updated tripal_genetic templates. Working on ND module hace 11 años
tripal_example 0bd1f019a7 Updated modules with nodes to use new sync functionality. Working on supporting checkboxes in syncing as well... not quite done hace 11 años
tripal_feature abe60dfdfb MViews no longer get removed on module uninstall hace 11 años
tripal_featuremap 571c4d5db3 Updated analysis, contact, featuremap, project, pub and stock to use the new properties api hace 11 años
tripal_genetic 4b664d7114 ND module done... will need more testing with large dataset hace 11 años
tripal_library abe60dfdfb MViews no longer get removed on module uninstall hace 11 años
tripal_natural_diversity 2cedc4943b Fixed bug in stock module that made genotypes show up twice hace 11 años
tripal_organism 0bd1f019a7 Updated modules with nodes to use new sync functionality. Working on supporting checkboxes in syncing as well... not quite done hace 11 años
tripal_phenotype 8bd0b15d71 Fixed phenotype module to include the tripal_feature.phenotype.tpl.php template hace 11 años
tripal_project 571c4d5db3 Updated analysis, contact, featuremap, project, pub and stock to use the new properties api hace 11 años
tripal_pub ff84d63214 API: Split up massive chado api into multiple files and re-named all core api files to be consistent hace 11 años
tripal_stock 1013abb11c Bug fixes to dbxref/prop/rel api hace 11 años
tripal_views 49527af90a Fixed type in .install file for all modules. Updated tripal_genetic templates. Working on ND module hace 11 años
.gitignore 455df59fcc removing empty lines hace 13 años
LICENSE.txt f8f44afa9c Added orphaned form items to sync form. Library module is now converted. hace 11 años
README.txt 8a898014b8 Renamed branch from 7.x-1.x to 7.x-2.x. Also merged bug fixes from 6.x-1.x hace 11 años

README.txt

What is Tripal?
--------------
Tripal is a collection of open-source freely available Drupal modules
and is a member of the GMOD family of tools. Tripal serves as a web
interface for the GMOD Chado database and is designed to allow anyone
with genomic data to quickly create an online genomic database using
community supported tools.


Features
--------------
- a Chado installer
- Data loaders for ontologies (controlled vocabularies), GFF files,
and FASTA files
- Generic Data Loader Modules allows for creation of custom loading
templates
- Drupal nodes (web pages) are automatically generated for organisms,
genomic features, biological libraries, and stocks
- Web pages can be enriched with analysis results from BLAST,
KAAS/KEGG, InterProScan, and Gene Ontology (GO)
- Views Integration allows for custom listings of data
- Content pieces exposed as blocks allowing the use of Panels for
custom layouts of Tripal Nodes


Required Modules
--------------
- Drupal 6.x (work is currently underway for a 7.x compatible
version)
- Drupal Core Modules: Search and Path
- Database containing GMOD Chado Schema (can be installed by the
Tripal Core module)
NOTE: A PostgreSQL database is required for installation of the
Chado Schema

Highly Recommended Modules
- Views 2.x (Views 3.x compatible version already exists in 6.x-0.4-dev)
- Views Data Export


Installation
--------------
Please follow the online tutorial for installation instructions:
http://www.gmod.org/wiki/Tripal_Tutorial_v1.1


Customization
--------------
Tripal can be used “as is” but also allows for complete customization.
PHP-based template files are provided for all data types to allow for
precise customizations as required by the community. A well-developed
Tripal API provides a uniform set of variables and functions for
accessing any and all data within the Chado database.


Future Work
--------------
Currently, Tripal only supports a large subset of the
current Chado schema, but further development is underway. Meanwhile,
others can use the Tripal API to develop their own extensions. Those
extensions can in turn be made available for anyone to use. These
custom extensions, the Tripal package, and access to support resource
such as an active mailing list can be found on the Tripal website
(http://tripal.sourceforge.net).

For more information, see the recent publication:

Stephen P. Ficklin, Lacey-Anne Sanderson, Chun-Huai Cheng, Margaret
Staton, Taein Lee, Il-Hyung Cho, Sook Jung, Kirstin E Bett, Dorrie
Main. Tripal: a construction Toolkit for Online Genome Databases.
Database, Sept 2011. Vol 2011.