GATE (Geant4 Application for Emission Tomography) is a Monte Carlo simulation platform developed by the OpenGATE collaboration since 2001 and first publicly released in 2004. Dedicated to the modelling of planar scintigraphy, single photon emission computed tomography (SPECT) and positron emission tomography (PET) acquisitions, this platform is widely used to assist PET and SPECT research. A recent extension of this platform, released by the OpenGATE collaboration as GATE V6, now also enables modelling of x-ray computed tomography and radiation therapy experiments. This paper presents an overview of the main additions and improvements implemented in GATE since the publication of the initial GATE paper (Jan et al 2004 Phys. Med. Biol. 49 4543-61). This includes new models available in GATE to simulate optical and hadronic processes, novelties in modelling tracer, organ or detector motion, new options for speeding up GATE simulations, examples illustrating the use of GATE V6 in radiotherapy applications and CT simulations, and preliminary results regarding the validation of GATE V6 for radiation therapy applications. Upon completion of extensive validation studies, GATE is expected to become a valuable tool for simulations involving both radiotherapy and imaging.
This paper introduces a multi-scale theory of piecewise image modelling, called the scale-sets theory, and which can be regarded as a region-oriented scale-space theory. The first part of the paper studies the general structure of a geometrically unbiased region-oriented multi-scale image description and introduces the scale-sets representation, a representation which allows to handle such a description exactly. The second part of the paper deals with the way scale-sets image analyses can be built according to an energy minimization principle. We consider a rather general formulation of the partitioning problem which involves minimizing a two-term-based energy, of the form λC+D, where D is a goodness-of-fit term and C is a regularization term. We describe the way such energies arise from basic principles of approximate modelling and we relate them to operational rate/distorsion problems involved in lossy compression problems. We then show that an important subset of these energies constitutes a class of multi-scale energies in that the minimal cut of a hierarchy gets coarser and coarser as parameter λ increases. This allows us to devise a fast dynamic-programming procedure to find the complete scale-sets representation of this family of minimal cuts. Considering then the construction of the hierarchy from which the minimal cuts are extracted, we end up with an exact and parameterfree algorithm to build scale-sets image descriptions whose sections constitute a monotone sequence of upward global minima of a multi-scale energy, which is called the "scale climbing" algorithm. This algorithm can be viewed as a continuation method along the scale dimension or as a minimum pursuit along the operational rate/distorsion curve. Furthermore, the solution verifies a linear scale invariance property which allows to completely postpone the tuning of the scale parameter to a subsequent stage. For computational reasons, the scale climbing algorithm is approximated by a pair-wise region merging scheme: however the principal properties of the solutions are kept. Some results obtained with Mumford-Shah's piece-wise constant model and a variant are provided and different applications of the proposed multi-scale analyses are finally sketched.
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