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SBML -> Confidence Scores #9

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tpfau opened this issue Nov 20, 2017 · 3 comments
Open

SBML -> Confidence Scores #9

tpfau opened this issue Nov 20, 2017 · 3 comments

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@tpfau
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tpfau commented Nov 20, 2017

This is a spin of from #6 for Confidence Scores.

Suggested: An additional (fbc or SBML) field "confidenceScore" associated with all model parts to indicate certainty of a specific model part.

@ChristianLieven
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ChristianLieven commented Dec 3, 2017

I just want to point to @matthiaskoenig's most recent response in #4. I am not too sure if the, rather arbitrarily-defined, confidence scores from the Thiele&Palsson-Protocol can keep up with the evidence ontology system suggested by @matthiaskoenig. With this I don't want to discourage the effort of adding an additional field for this purpose, I'd just like us to be aware of potentially better options for the content of this field.

@draeger
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draeger commented Jan 20, 2018

In the discussion of how to improve the output of https://github.com/SBRG/ModelPolisher (an application developed to ensure standard complience of BiGG models) @matthiaskoenig suggested Evidence Ontology (ECO) terms for the most common confidence scores used in COBRA models, see draeger-lab/ModelPolisher#5.

@tpfau
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tpfau commented Jan 22, 2018

Fully agree on this. But as mentioned, We should have a translation scheme in both directions stored somewhere.

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