Re: [Psidev-pi-dev] analysis tree

[Angel P. <an...@ma...>]

On Wed, May 28, 2008 at 7:11 AM, Jones, Andy <And...@li...>
wrote:

>
> Therefore, my vote is that we only support use case 1. This means that if
> someone wants to communicate a complete set of possible peptide / proteins
> (including decoys / likely false positives), it can be done, but this would
> be a separate file from their "final result set".
>
>
>
> Does everyone see what I'm getting at...?
>
>
I do ;-)  and am right there with you. Although to get at the question of
user-defined thresholding, that in itself is an analysis, and should be
communicated as such in the protocol + params.

-angel

>
>
> Cheers
>
> Andy
>
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> *From:* psi...@li... [mailto:
> psi...@li...] *On Behalf Of *Angel Pizarro
> *Sent:* 27 May 2008 16:53
> *To:* Martin Eisenacher
> *Cc:* psi...@li...
> *Subject:* Re: [Psidev-pi-dev] analysis tree
>
>
>
> Still don't agree with this. In your last slide, both of the protein
> determinations are the result IMHO.
>
>
>
> If you want to highlight one or the other as "The Result" , create a file
> w/ just that analysis.
>
>
>
> -angel
>
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>
>
> On Tue, May 27, 2008 at 11:42 AM, Martin Eisenacher <
> mar...@ru...> wrote:
>
> Dear colleagues!
>
> In the last Telecon I tried(!) to
> argument for an attribute marking the
> "actual" analysis of an AnalysisXML
> file.
>
> We agreed to let me assemble some
> descriptive slides (attached).
>
> I hope, with them my point gets more
> clear. I think it is not
> only a philosophical question, because
> it has consequences for programming,
> tools and databases...
>
>  Bye
>   Martin
>
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>
>
> --
> Angel Pizarro
> Director, ITMAT Bioinformatics Facility
> 806 Biological Research Building
> 421 Curie Blvd.
> Philadelphia, PA 19104-6160
> 215-573-3736
>
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-- 
Angel Pizarro
Director, ITMAT Bioinformatics Facility
806 Biological Research Building
421 Curie Blvd.
Philadelphia, PA 19104-6160
215-573-3736