Mathieu Leclaire, Romain Reuillon
Large scale experimentations on models
Methods
Design of experiments on a space of parameters |
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Calibration |
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Methods
Optimization |
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Sensitivity analysis |
Naturally parallel algorithms => leverage parallelism.
What does OpenMOLE do ?
It implements exploration algorithms. |
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It transparently delegates computational loads to massively parallel environments. |
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Upscaling
Prototype small
Experiment large
A naturally parallel formalism to design experiments.
Embed your model as a black box
C
R
C++
Java
Scala
Scilab
Octave
Python
Netlogo
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A Netlogo Task in OpenMOLE GUI
Assign execution environments to tasks.
Download: http://www.openmole.org
Chromosome structuring |
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C++ |
Junier et al., CTCF-mediated transcriptional regulation through cell type-specific chromosome organization in the β-globin locus, Nucleic Acids Research, 2012.
SimTRAP project |
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NetLogo |
PhD thesis of J. Figuel, Modélisation et simulation des comportements piétonniers dans les espaces de transport – Application aux échanges quai / train de voyageurs.
Simpop project |
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Scala |
Reuillon et al., Algorithmes évolutionnaires sur grille de calcul pour le calibrage de modéles géographiques, proceedings of France Grilles 2012.
1.5s by simulation
100 replications by fitness evaluation: 3min
millions of fitness evaluation
=> several years of computation
Gain > 2000: 5.5 year of computation / day
We have established that the modeling hypothesis are sufficient to reproduce the dynamic.
Reusable / model independant / integrated in OpenMOLE... for instance reused for an epidemic model in NetLogo.
Join us on the users@list.openmole.org
and on openmole.org
