nice 2012, biowikis and daswiki
TRANSCRIPT
Some wikis I have known
Some wikis I have known
Arguing the case for using 'wiki-style' technology to store structured data by demoing a few of the 'data' wikis that I've created or developed, with an emphasis on wikis for biological data, the so called BioWikis.
My world view...
I WIKI
Disclaimer
When I say, "I'm a wiki person" I don't mean to imply that I think wiki is a specific tool that has strengths or weaknesses when compared to another tool, rather I mean that wiki is the realisation of a different philosophy of data curation that I support.
Technology
MediaWiki...
...
Semantic MediaWiki...
...
Wikis!
Wikis!
SEQwiki
Describes tools for HTS analysis
using structured data for each tool
collected via forms to help enforce structure.
Provides data driven navigation.
DASWiki
Model DAS data in the wiki.
Boils down to modelling GFF.
Can also model the whole registry...
DAS Wiki
Query API
DAS ServerWiki adaptorQuery APIDAS Client
DAS client configured to show a track from the DAS server.
Client queries the server for data.
Server uses the 'wiki adaptor' to query the wiki.
Wiki returns the queried data.
Data formatted as DAS.
Returned to the client.
DAS Wiki
Query API
DAS ServerWiki adaptorQuery APIDAS Client
Justin's Wiki
Wiki for plant genome annotation
A. thaliana + O. sativa GAF~10K annotations
~50K wiki pages
Git...
Git...
BioGit
The End
The End
?