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jClustering, an open framework for the development of 4D clustering algorithms.

Mateos-Pérez JM, García-Villalba C, Pascau J, Desco M, Vaquero JJ - PLoS ONE (2013)

Bottom Line: Providing an easily extensible open tool encourages publication of source code to facilitate the process of comparing algorithms and provide interested third parties with the opportunity to review code.The internal structure of the framework allows an external developer to implement new algorithms easily and quickly, focusing only on the particulars of the method being implemented and not on image data handling and preprocessing.Both binary packages and source code have been published, the latter under a free software license (GNU General Public License) to allow modification if necessary.

View Article: PubMed Central - PubMed

Affiliation: Instituto de Investigación Sanitaria Gregorio Marañón, Madrid, Spain ; Centro de Investigación Biomédica en Red de Salud Mental (CIBERSAM), Madrid, Spain.

ABSTRACT
We present jClustering, an open framework for the design of clustering algorithms in dynamic medical imaging. We developed this tool because of the difficulty involved in manually segmenting dynamic PET images and the lack of availability of source code for published segmentation algorithms. Providing an easily extensible open tool encourages publication of source code to facilitate the process of comparing algorithms and provide interested third parties with the opportunity to review code. The internal structure of the framework allows an external developer to implement new algorithms easily and quickly, focusing only on the particulars of the method being implemented and not on image data handling and preprocessing. This tool has been coded in Java and is presented as an ImageJ plugin in order to take advantage of all the functionalities offered by this imaging analysis platform. Both binary packages and source code have been published, the latter under a free software license (GNU General Public License) to allow modification if necessary.

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Main program window screenshot.This window allows the user to select the ClusteringTechnique and set several options for data output. The top tabs can be used if the ClusteringTechnique (and its ClusteringMetric, where available) requires input for configuration. As the image is loaded into the plugin upon execution, the original image title is also shown to stress the fact that all the clustering operations will be applied to that image.
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pone-0070797-g003: Main program window screenshot.This window allows the user to select the ClusteringTechnique and set several options for data output. The top tabs can be used if the ClusteringTechnique (and its ClusteringMetric, where available) requires input for configuration. As the image is loaded into the plugin upon execution, the original image title is also shown to stress the fact that all the clustering operations will be applied to that image.

Mentions: The main program window is shown in Figure 3. The different configuration panels are accessible using the top tabs, thus enabling all the necessary options to be presented in a single window.


jClustering, an open framework for the development of 4D clustering algorithms.

Mateos-Pérez JM, García-Villalba C, Pascau J, Desco M, Vaquero JJ - PLoS ONE (2013)

Main program window screenshot.This window allows the user to select the ClusteringTechnique and set several options for data output. The top tabs can be used if the ClusteringTechnique (and its ClusteringMetric, where available) requires input for configuration. As the image is loaded into the plugin upon execution, the original image title is also shown to stress the fact that all the clustering operations will be applied to that image.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3750055&req=5

pone-0070797-g003: Main program window screenshot.This window allows the user to select the ClusteringTechnique and set several options for data output. The top tabs can be used if the ClusteringTechnique (and its ClusteringMetric, where available) requires input for configuration. As the image is loaded into the plugin upon execution, the original image title is also shown to stress the fact that all the clustering operations will be applied to that image.
Mentions: The main program window is shown in Figure 3. The different configuration panels are accessible using the top tabs, thus enabling all the necessary options to be presented in a single window.

Bottom Line: Providing an easily extensible open tool encourages publication of source code to facilitate the process of comparing algorithms and provide interested third parties with the opportunity to review code.The internal structure of the framework allows an external developer to implement new algorithms easily and quickly, focusing only on the particulars of the method being implemented and not on image data handling and preprocessing.Both binary packages and source code have been published, the latter under a free software license (GNU General Public License) to allow modification if necessary.

View Article: PubMed Central - PubMed

Affiliation: Instituto de Investigación Sanitaria Gregorio Marañón, Madrid, Spain ; Centro de Investigación Biomédica en Red de Salud Mental (CIBERSAM), Madrid, Spain.

ABSTRACT
We present jClustering, an open framework for the design of clustering algorithms in dynamic medical imaging. We developed this tool because of the difficulty involved in manually segmenting dynamic PET images and the lack of availability of source code for published segmentation algorithms. Providing an easily extensible open tool encourages publication of source code to facilitate the process of comparing algorithms and provide interested third parties with the opportunity to review code. The internal structure of the framework allows an external developer to implement new algorithms easily and quickly, focusing only on the particulars of the method being implemented and not on image data handling and preprocessing. This tool has been coded in Java and is presented as an ImageJ plugin in order to take advantage of all the functionalities offered by this imaging analysis platform. Both binary packages and source code have been published, the latter under a free software license (GNU General Public License) to allow modification if necessary.

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