[MOBY-l] Re: BIoinformatics Protocols Ontological KnowledgeBase?

[Elia Stupka]

> I'm not sure that this makes a huge amount of difference.

See my later mail, I agree now.

As you say, we all need to describe data going in, data coming out and 
the process (if one analysis) or processes (if a pipeline) that are 
applied to it, so the ontology we need is identical, I agree.

So I think the only slight difference is in the focus, not in 
substance, i.e. while we obviously need to work on the ontology and the 
plumbing what we would like to see developed is an actual resource that 
would collate and curate established protocols (workflows,etc.) to 
extract biological information from raw data as well as possibly allow 
execution of those protocols on a local server and commenting/ranking 
of protocols by bioinformaticians.

> We would like to extract good descriptions of a workflow from its 
> component
> parts, although its not clear how far this is possible at the moment.

We hope that BioPipe and its XML will make it a step closer though as 
yet it is not as abstract as you would probably like it to be.

Do you have a meeting/workshop scheduled soon? What is the status of 
Moby?

Elia

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Bioinformatics Program Manager
Temasek Life Sciences Laboratory
1, Research Link
Singapore 117604
Tel. +65 6874 4945
Fax. +65 6872 7007