= Open Bio* Semantic Web tools =

== Participants ==

(Please add your name!)

 * Toshiaki Katayama

=== RDF libraries in each language ===

(Please add other languages as well!)

Name of the available libraries

 * Ruby
  * ActiveRDF: may depends on Rails
 * Python
  * librdf
 * Perl
  * RDF: generic RDF library
  * ONTO-Perl: OBO centric

Functionality

 * RDF reader (in)
 * RDF generator (out)

|| language || in || out||
|| Ruby || ? || ? ||
|| Python || o || ? ||
|| Perl || o || ? ||

=== Tools to manipulate RDF data ===

 * RDF grep
 * RDF diff
 * RDF sort
 * RDF uniq
 * RDF wc (triple count)
 * RDF cat (combine)

 ** (most of) these commands will output RDF graph :)
 ** "sort" before "diff" is better.
 ** it would be great if "diff" can have an option to ignore "empty node" which can shift internal IDs even if the graphs are almost same.

=== RDF converters ===

 * general:
  * RDF --> JSON (for CoarchDB, mongoDB etc.)
 * biological:
  * Bio DB entries -> RDF (in BioRuby for TogoWS, for example)
  * OBO <-> RDF (used in Cell Cycle Ontology because ".obo" file format is easy to read for human)

=== Interface for SPARQL endpoint ===

Language availability

|| Ruby || ? ||
|| Python || o ||
|| Perl || ? ||
|| Java || o ||
|| R || ? ||