Closed yannikschaelte closed 5 years ago
will add a description in the documentation, but short answer here:
* What exactly is the concept behind the sigma_... and noise_... parameters in the sbml file (again :) )?
- sigma_observableId specifies the full noise model, could for example also be something like: sigma_observableId = noiseParameter1_observableId + noiseParameter2_observableId * observable_observableId, but usually we have just a simple noise model with sigma_observableId = noiseParameter1_observableId
- How to handle condition-specific noise parameters / models?
- which conditions/observables/... share noise parameters is be defined in the measurementData sheet
- What is supposed to be filled in the noiseParameters column in the measurement file unless specified as a float?
- sorry I do not understand the question? in this column we have the string for the noise parameter
Thanks for clarifying. Concerning question 1: That's what I guessed. So in the Zheng model, should that one noise
parameter be mapped to all noiseParameter1_observableId
parameters? I.e. we have a mapping rule ``${noise} -> ${noise}Parameter1_${observableId}$ \forall ${observableId}?
Concerning question 3: By noise parameter you mean the sigma parameter in the wording of the sbml file? Or noise=sigma?
Ok, let's maybe discuss tomorrow. Probably I'm just confused. :)
Thanks for clarifying. Concerning question 1: That's what I guessed. So in the Zheng model, should that one noise parameter be mapped to all noiseParameter1observableId parameters? I.e. we have a mapping rule ``${noise} -> ${noise}Parameter1${observableId}$ \forall ${observableId}?
yes exactly
Concerning question 3: By noise parameter you mean the sigma parameter in the wording of the sbml file? Or noise=sigma?
I mean the noiseParameter in the wording of the SBML file but yes lets discuss tomorrow :)
resolved.
Document how the noise parameter construct is meant (this lead to some problems in the import and seems to be handled not fully coherently in the converted models ...).