TeraTools: experiences in developing software for ultra-terabyte image processing
Il 13/03/2019 ore 14.30 - 15.30
Sala Conferenze Cnr, Area della Ricerca Napoli1, via Pietro Castellino 111, 80131 Napoli
Giulio Iannello, from the Departmental Faculty of Engineering, Campus Bio-Medico University of Rome will give a Seminar on 'TeraTools: experiences in developing software for ultra-terabyte image processing'
State-of-the-art microscopes, coupled with chemical clearing procedures to render brain tissue transparent can generate 3D images of terabyte size at high throughput. Processing and manipulation of these images require new software tools to perform a number of functions from stitching, to visualization, to annotation, to analysis.
In 2012 TeraStitcher was developed, a stitching software capable to deal with terabyte-sized images currently being used by many labs around the world. Since then we have constantly improved TeraStitcher in many respects, and developed other tools providing powerful visualization, annotation, and automated image analysis capabilities on terabyte-sized datasets.
In this talk Giulio Iannello will discuss the design choices that made TeraStitcher and the other tools successful in dealing with ultra-terabyte images.
In the first part of the seminar he will discuss the strategies and the algorithms used to minimize computing resource requirements, and how the internal software architecture of the tool allowed us to extend its capabilities to deal with different image acquisition systems, different image formats and increasing image sizes. The latter issue motivated us to introduce parallelization of some steps of the stitching pipeline, as well as the use of CUDA to exploit the computing capabilities of graphic cards.
In the second part of the seminar Giulio Iannello will present three more tools, TeraConverter, Vaa3D-Terafly and Brain Cell Finder that provide solutions to format conversion and efficient access, visualization, annotation and analysis of very large 3D images, and he will mention some open problems that still limit a widespread and effective use of these images in practical contexts.
Organizzato da:
Cnr-Ibp
Referente organizzativo:
Alberto Luini
Cnr-Istituto di biochimica delle proteine
Via Pietro Castellino 111, 80131 Napoli
a.luini@ibp.cnr.it
Modalità di accesso: ingresso libero
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