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Benchmarking-Initiative / Benchmark-Models-PEtab

A collection of mathematical models with experimental data in the PEtab format as benchmark problems in order to evaluate new and existing methodologies for data-based modelling
BSD 3-Clause "New" or "Revised" License
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Specification of model time in observables file unclear #168

Closed shoepfl closed 1 year ago

shoepfl commented 1 year ago

Hi,

We try to reproduce the MAPK model of Santos et al. 2007 in PEtab with a students course, however they normalized their measurements to the peak value. I.e. the peak in the measurement data is 1 and all other values are given relative to this one.

Is there a way to do this normalization also in the observable formula?

Something like observableFormula = Species/Species(time = peak_time)?

I just found in the docs that specifying the time should be possible but not how (May contain any symbol defined in the SBML model (including model time time))- any help woud be nice.

Thanks in advance, Sebastian

shoepfl commented 1 year ago

Sorry i was in the wrong repo - i posted the question to the PEtab repo itself