SPOTting Model Parameters Using a Ready-Made Python Package

The choice for specific parameter estimation methods is often more dependent on its availability than its performance. We developed SPOTPY (Statistical Parameter Optimization Tool), an open source python package containing a comprehensive set of methods typically used to calibrate, analyze and optim...

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Bibliographic Details
Published in:PloS one 2015-12, Vol.10 (12), p.e0145180-e0145180
Main Authors: Houska, Tobias, Kraft, Philipp, Chamorro-Chavez, Alejandro, Breuer, Lutz
Format: Article
Language:English
Subjects:
Algorithms
Biogeochemistry
Calibration
Carbon dioxide
Case studies
Ecological models
Ecological monitoring
Ecosystem
Freeware
Genetic aspects
Hydrology
Indian python
Land use
Landscape ecology
Mathematical models
Message passing
Methods
Models, Biological
Nutrition
Objective function
Optimization
Parameter estimation
Parameters
Software
Soil moisture
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Summary:The choice for specific parameter estimation methods is often more dependent on its availability than its performance. We developed SPOTPY (Statistical Parameter Optimization Tool), an open source python package containing a comprehensive set of methods typically used to calibrate, analyze and optimize parameters for a wide range of ecological models. SPOTPY currently contains eight widely used algorithms, 11 objective functions, and can sample from eight parameter distributions. SPOTPY has a model-independent structure and can be run in parallel from the workstation to large computation clusters using the Message Passing Interface (MPI). We tested SPOTPY in five different case studies to parameterize the Rosenbrock, Griewank and Ackley functions, a one-dimensional physically based soil moisture routine, where we searched for parameters of the van Genuchten-Mualem function and a calibration of a biogeochemistry model with different objective functions. The case studies reveal that the implemented SPOTPY methods can be used for any model with just a minimal amount of code for maximal power of parameter optimization. They further show the benefit of having one package at hand that includes number of well performing parameter search methods, since not every case study can be solved sufficiently with every algorithm or every objective function.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0145180