https://github.com/veupathdb/wdk
https://github.com/veupathdb/wdk
Last synced: 11 months ago
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- Host: GitHub
- URL: https://github.com/veupathdb/wdk
- Owner: VEuPathDB
- License: apache-2.0
- Created: 2019-06-07T00:21:00.000Z (about 7 years ago)
- Default Branch: master
- Last Pushed: 2025-07-29T11:03:27.000Z (11 months ago)
- Last Synced: 2025-07-29T13:39:46.787Z (11 months ago)
- Language: Java
- Homepage:
- Size: 92.4 MB
- Stars: 1
- Watchers: 23
- Forks: 4
- Open Issues: 18
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Metadata Files:
- Readme: README.adoc
- License: LICENSE
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README
# Strategies Website Development Kit (WDK)
Strategies WDK is a powerful Java-based search platform and REST API to access data stored in a relational database. When combined with the https://github.com/VEuPathDB/WDKClient[WDKClient] web client, it provides an online workspace for exposing relational and other data through a pre-configured set of parameterized queries. These queries can be saved, edited, and shared. They can also be combined to form a complex search “strategy”, a tree-based flow of search results.
.Features include:
* XML configuration of:
** Record types (Record Classes)
** Parameterized searches (Questions)
** Record-based attributes and data tables
* Plugin APIs to support:
** configurable result filters
** configurable reports/formats
** asynchronous result analysis (Step Analysis)
** non-RDBMS search (Process Queries)
** result type transformation (e.g. genes to pathways)
* Finding and bookmarking a particular record (Record Pages, Favorites)
* Saving off a set of records (Baskets)
* User login and preference storage
* Widescale result caching
* Extensible coding APIs for customized websites
Full up-to-date technical documentation (in progress) can be found https://veupathdb.github.io/WDK[here].
This system has proved highly successful in enabling sophisticated data-mining of 'omics' data (e.g. genes, SNPs, studies) by a diverse group of end users. For VEuPathDB, it has primarily been used to mine data in the https://github.com/VEuPathDB/GusSchema[GUS Schema] (Fischer et al. Database 2011), but has recently been updated so as to provide the ability to browse extensive metadata, e.g. https://clinepidb.org[clinical epidemiology variables], inspired by the Harvest data discovery platform (Pennington et. al., JAMIA 2014).
Exploiting the GUS/Strategies-WDK system, our group has successfully developed and deployed a system in support of functional genomics data for diverse user communities, including the http://veupathdb.org[NIAID VEuPathDB Bioinformatics Resource Center], the http://genomics.betacell.org[NIDDK Beta Cell Biology Consortium Genomics Resource], and the http://www.niagads.org/genomics[NIA NIAGADS Genomics database]. Although thus far used primarily for functional genomics datasets, our system is inherently generalizable beyond omics data, including clinical records.
Explore https://plasmodb.org, a large scale production site powered by the WDK.
Original GUS/WDK project description is https://www.cbil.upenn.edu/node/86[here].
Legacy documentation can be found https://docs.google.com/document/d/1kmNWkkcInKoxxiuUJqbc4QPWuySQud0OuECJ2TmEMTo/pub[here].