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How to do model fitting in simbiology

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Yu Zhuo
Yu Zhuo on 18 Feb 2020
Commented: Yu Zhuo on 18 Feb 2020
Dear Simbiology community,
I got 1 problem when I tried to fit data in simbiology. I am doing a population model fitting.
I have 1 column called "body weight" in my dataset. In that case, one parameter called 'AC' in my model could have different values for different IDs (subjects) (AC=BC*body weight). How could I let simbiology know this parameter 'AC' could change for different IDs? Should I revise my dataset or add parameters in my model?
I appreciate if someone could provide answers in detail. Thanks in advance!
YZ

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Accepted Answer

Fulden Buyukozturk
Fulden Buyukozturk on 18 Feb 2020
Edited: Fulden Buyukozturk on 18 Feb 2020
Hello,
You can "dose" Body Weight to achieve this:
  • Set "body weight" column as a dose column - dose2 if you already have an actual dose in your dataset.
  • Create a new species to represent body weight since only species can be dosed in SimBiology. Let's assume you call this species BW.
  • Set the value of the parameter that represents bodyweight in the model using a repeated assignment rule bodyweight = BW and calculate AC with another repeated assignment rule as AC = BC*bodyweight.Note that it's important to use repeated assignment rules intead of an initial assingment rule. Since initial assingmentments are evaluated before dosing, using initial assigmnets can lead to problems.
  • In fit data task/program, map the "body weight" data column with BW.
Please let me know if this helps.
Fulden

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Yu Zhuo
Yu Zhuo on 18 Feb 2020
Thanks so much for your rely. It helps me a lot.
However, what I learnt before is that rules (eg. repeated assignment rules you mentioned) are only used in simulation, not model fitting, could I do this as you suggested when I am doing model fitting and would like to get parameter estimation?
I am really new to simbiology and I will appreciate if you could answer my stupid question. Thanks!
YZ

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