[Bioperl-l] Pipeline stuff

[Peter Kos]

Elia,

today I do not understand much from the first paragraph below and I 
understand very few from the second one. However, I am not completely 
ignorant, I hope, I just miss something that would put the puzzle 
together.
Anyhow, something tells me that your pipeline stuff may be exactly 
what I need.
Of course I do not want to ask lame questions. Therefore let me just 
ask this:
Do you already have something written material, leaflet, homepage, 
introduction, example, tutorial whatever on this matter? Or the 
things you mention in the second paragraph? When are you going to 
come out with them?
I belong to newbies working in small-to-evensmaller labs, although I 
consider my current project at least medium. So I need help, and of 
course I want to use all possible kind of help available for me 
(human, literature, software, Internet service etc.). What you 
describe here seems to be a pretty good one.

This is going to be an OpenSource, and not your consultancy or 
whatever firm's property, am I right?

Regards
Peter

> this is one of the reasons why we have started working on the
> bioperl pipeline, it is to encapsulate in a robust reproducible 
core
> simple-to-complex tasks that people out there in small to medium
> labs would like to manage. Running things as part of the pipeline 
of
> course gives you an easy way to a)re-run every time you want
> with updated data, b)record sensibly each stage of your analysis
> for a potential paper,etc. c)introduces sanity all round.
>
> As part of this effort to make it easier for newbies we are
> producing XML "templates" for commonly wanted tasks,
> eventually we will have one out for annotation (genome-style)
> on any input sequence, as well as simple blast
> pipelines that can be easily modified, protein clustering,etc.
>
> Elia
>
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..................................................................  
..........
Peter B. Kos, Ph.D.
 (RITE)
E-mail: kos@rite.or.jp