Team:Groningen/modeling cumulus

From 2011.igem.org

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=Cumulus=
 
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Cumulus is the Cloud based, modeling and data exchange program that we developed. It is uses genetic algoritms to
 
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[[File:CumulusLogo.png| centre]]
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==Links==
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Cumulus is the Cloud based modelling and data exchange program that we developed. Its purpose is to show, as a proof of concept, that it is possible to integrate both the exchange of data, the production of comprehensive models, and the sharing of computational resources into one platform. 
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Here are some links that migth awnser you emidiate questions:
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*[Cloud aren't they the white stuff floating in the sky?]
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*[A iGEM application in the cloud, Why would you do that?]
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*[I work in a genetics department, but what about the algoritm part?]
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To this end we developed a new collaborative Biology Framework based on Service Oriented Architectures (SOA) and on a Web Services. This approach simplifies and harmonizes the work carried out on the Cloud and Grid platform by geographically dispersed scientists. The new collaborative SOA Cloud Framework (called Cumulus) provides an efficient and easy way to run distributed software.
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This capability is put to use in a parameter optimization program, (currently a genetic algorithm) to find the optimal parameters for submitted models. In other words, Cumulus makes it simple to use cloud computing resources to find parameters for models, and at the same time, leads to the sharing of information.
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=Vision=
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We imagine a world in which biolegist are able to share their data with the click of a button. A world in which torough reliable measuring procedures exist that help scientist caracterise their parts at the click of a button.
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A world in which not just data but also the models supporting that data
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Below are links to look at the different parts of the Cumulus project.
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*[[Team:Groningen/modeling_vision|Our Cumulus vision]]
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Cumulus is our way of making this world come a littlecloser.
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*[[Team:Groningen/modeling_methods|Why we build Cumulus]]
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*[[Team:Groningen/modeling_simulation_engine|The Cumulus simulation engine]]
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==How we came to building Cumulus==
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*[[Team:Groningen/modeling_genetic_algorithms|How we find parameters]]
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Even building a simpel model of
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*[[Team:Groningen/modeling_results|Cumulus system results]]
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*[[Team:Groningen/modeling_cumulus2|The next version of the Cumulus system]]
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We quickly discovered that the proportion of
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It is for these reasons that we started work on Cumulus.
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==Advantages of Cumulus==
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The ad
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===Advantages of a cloud based aplication===
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* General public acces, everyone can use everyones data
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* Sharing computational resources enables us the reap the econmy of scale.
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* The flexibilety of a cloud application helps to avoid the resource wast of underutilisation.
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Share in cheap
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and en enjoy
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===Advantages of our generic modeling approuch===
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* Exchangable models, Share not only you data but also the model wich you think describes the data.
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* Simulate your cells unsing a simple [https://2011.igem.org/Team:Groningen/simulation_engine simulation engine]
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* Fit the paramaters of you simulation to exprimental data at the click of a button.
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* [https://2011.igem.org/Team:Groningen/genetic_algorithms Genetic algorithms] allow cumulus to explore very large parameters spaces.
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* Reap the benifits of overlapping experiment, our modeling system allows you to use data from two experiments that share some, but not all, biobrick parts to improve the characterisation of all parts in both experiments.
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===Downloading cumulus===
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[http://igem.molgenrug.nl/igem2011/Cumulus/setup.exe Download the Cumulus Pbad Demo installer]
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[http://igem.molgenrug.nl/igem2011/Cumulus/Cumulus.zip Download the full source code]
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Latest revision as of 01:36, 22 September 2011


CumulusLogo.png

Cumulus is the Cloud based modelling and data exchange program that we developed. Its purpose is to show, as a proof of concept, that it is possible to integrate both the exchange of data, the production of comprehensive models, and the sharing of computational resources into one platform.

To this end we developed a new collaborative Biology Framework based on Service Oriented Architectures (SOA) and on a Web Services. This approach simplifies and harmonizes the work carried out on the Cloud and Grid platform by geographically dispersed scientists. The new collaborative SOA Cloud Framework (called Cumulus) provides an efficient and easy way to run distributed software.

This capability is put to use in a parameter optimization program, (currently a genetic algorithm) to find the optimal parameters for submitted models. In other words, Cumulus makes it simple to use cloud computing resources to find parameters for models, and at the same time, leads to the sharing of information.

Below are links to look at the different parts of the Cumulus project.


Downloading cumulus

Download the Cumulus Pbad Demo installer Download the full source code





Retrieved from "http://2011.igem.org/Team:Groningen/modeling_cumulus"