Frequently asked questions of add-my-pet procedure

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AmP estimation

Data and completeness
Parameter estimation
Goodness-of-fit: SMSE / MRE
AmP Literature

Practice - essentials

Starting an estimation for a new species
Setting initial parameter values
Setting weight coefficients
Computing implied properties
Submitting to the collection
Obtaining parameter confidence intervals

Practice - extra modules
Code specification
User-defined files: run, mydata, pars_init, predict
Data: Zero-variate, Univariate, Pseudo-data

Typified models
Estimation options

How do I start?

Got to Toolbox: lib/pet (of the DEBtool manual).

How and/or where can I change the initial values of the parameters?

Read all about this topic in Starting an estimation for a new species.

Where is the data?

In mydata_my_pet

Where are the parameters?

In pars_init_my_pet. Parameters are also saved in results_my_pet.mat.

Where can I change which parameters are estimated?

Fix or release parameters in pars_init_my_pet

Where can I change the weight coefficients for the data I consider in the estimation procedure?

In mydata_my_pet. You can read how to change weights here.

Where do I find examples of predictions for a given type of data?

Go to the collection and check on the right hand side the list of zero-variate and uni-variate data for each pet.

Do I need a custom_results_my_pet.m file?

Only if you want to personalize the printing of your results.

How do I customize the results of the uni-variate data

Save the custom_results_template from the DEBtool folder /lib/pet into your working folder.

Edit the name of the file, replacing template by the latin name of your species.

Open the file and make the same change in the header of the file and replace my_pet by the latin name of your species (line 31). You subsequently, customize the plots of the uni-variate data.

When custom_results_my_pet exists in the working folder, results of the uni-variate data are printed to screen.

Where can I find the required fields for a given bibliography entry type (e.g. : book, article, report, etc)?

See for instance the Bibliographic information file.

What do I do if I have multiple references for a same data set?

If you have two reference for Lb then you can write: bibkey.Lb = {'FishMill1979', 'MollRose1982'}.