I can quickly come up with a straightforward suggestion for representing
tags as intermediate results. They aren't identifications, so I'm not
sure if they should go in SpectrumIdentificationResult or an element
type of their own. But certainly they need a type separate from
SpectrumIdentificationItem, i.e. SpectrumSequenceTagItem. So a single
SpectrumIdentificationResult for a sequence tagging analysis might look
like:
> <SpectrumIdentificationResult id="result_ref_178_1">
> <SpectrumSequenceTagItem id="tag_ref_178_1"
> NTerminusFlankingMass="123.4"
> CTerminusFlankingMass="567.8">
> <SequenceTagEvidence>LKS</SequenceTagEvidence>
> <pf:cvParam accession="PI:x" name="directag_total_expect" cvRef="PSI-PI" value="0.00123"/>
> <pf:cvParam accession="PI:x" name="directag_intensity_pvalue" cvRef="PSI-PI" value="0.00002"/>
> <pf:cvParam accession="PI:x" name="directag_mz_fidelity_pvalue" cvRef="PSI-PI" value="0.0003"/>
> <pf:cvParam accession="PI:x" name="directag_rank" cvRef="PSI-PI" value="1"/>
> </SpectrumSequenceTagItem>
> <SpectrumElement spectrumID="" SpectraData_ref="SD_1"/>
> </SpectrumIdentificationResult>
>
-Matt
David Creasy wrote:
> Hi everyone,
>
> There will be an AnalysisXML working group conference call today at:
> http://www.timeanddate.com/worldclock/fixedtime.html?day=23&month=10&year=2008&hour=16&min=0&sec=0&p1=136
>
> Minutes from last meeting at:
> http://psidev.info/index.php?q=node/378
>
> Agenda:
>
> 2. Progress with Sequence Tag example (Matt )
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