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Monte Carlo eXtreme (MCX) Suite | ||
version 2020 | ||
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Copyright (c) 2010-2020 Qianqian Fang <q.fang at neu.edu> | ||
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- Computational Optics & Translational Imaging (COTI) Lab (http://fanglab.org) | ||
- Department of Bioengineering, Northeastern University | ||
- 360 Huntington Ave, ISEC 204, Boston, MA 02115, USA | ||
- Website: http://mcx.space | ||
- Github: http://github.com/mcextreme/ | ||
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:: Acknowledgement: | ||
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The MCX Project is funded by the US National Institutes of Health (NIH)/National Institute of General Medical Sciences (NIGMS) under grant R01-GM114365 (PI: Qianqian Fang) | ||
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:: License: | ||
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This program is free software: you can redistribute it and/or modify | ||
it under the terms of the GNU General Public License, as published | ||
by the Free Software Foundation, either version 3 of the License, or | ||
(at your option) any later version. | ||
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The full text of the software license can be found at | ||
https://www.gnu.org/licenses/gpl-3.0.en.html | ||
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To continue installation, you must agree with the above license. | ||
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:: Citation: | ||
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The technical details of the software tools included in this | ||
package can be found in the below publications. | ||
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If you use MCX/MMC/MCX-CL in your research, you agree to | ||
cite the relevant papers in your publications. | ||
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-- "MCX" -- | ||
# [Fang2009] Qianqian Fang and David Boas, "Monte Carlo Simulation of Photon Migration in 3D Turbid Media Accelerated by Graphics Processing Units," Opt. Express, vol. 17, issue 22, pp. 20178-20190 (2009). | ||
$Summary: original MCX paper | ||
$Download: http://www.osapublishing.org/oe/abstract.cfm?uri=oe-17-22-20178 | ||
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-- "MCX-CL" -- | ||
# [Yu2018] Leiming Yu, Fanny Nina-Paravecino, David Kaeli, Qianqian Fang, "Scalable and massively parallel Monte Carlo photon transport simulations for heterogeneous computing platforms," J. Biomed. Opt. 23(1), 010504 (2018). | ||
$Summary: original MCX-CL (OpenCL) paper | ||
$Download: https://doi.org/10.1117/1.JBO.23.1.010504 | ||
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-- "MMC" -- | ||
# [Fang2019] Qianqian Fang*, Shijie Yan, "Graphics processing unit-accelerated mesh-based Monte Carlo photon transport simulations," J. of Biomedical Optics, 24(11), 115002 (2019) | ||
$Summary: GPU-based MMC | ||
$Download: http://dx.doi.org/10.1117/1.JBO.24.11.115002 | ||
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# [Yan2019] Shijie Yan, Anh Phong Tran, Qianqian Fang*, "A dual-grid mesh-based Monte Carlo algorithm for efficient photon transport simulations in complex 3-D media," J. of Biomedical Optics, 24(2), 020503 (2019). | ||
$Summary: Dual-grid MMC for faster and more accurate mesh-based simulations | ||
$Download: http://dx.doi.org/10.1117/1.JBO.24.2.020503 | ||
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# [Yao2018] Ruoyang Yao, Xavier Intes, Qianqian Fang*, "A direct approach to compute Jacobians for diffuse optical tomography using perturbation Monte Carlo-based photon 'replay'," Biomed. Optics Express 9(10), 4588-4603 (2018) | ||
$Summary: Building Jacobians with replay in MCX/MMC | ||
$Download: https://www.osapublishing.org/boe/abstract.cfm?uri=boe-9-10-4588 | ||
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# [Yao2016] Ruoyang Yao, Xavier Intes, Qianqian Fang*, "Generalized mesh-based Monte Carlo for wide-field illumination and detection via mesh retessellation," Biomed. Optics Express, 7(1), 171-184, (2016) | ||
$Summary: Widefield MMC | ||
$Download: https://www.osapublishing.org/boe/abstract.cfm?uri=boe-7-1-171 | ||
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# [Fang2012] Qianqian Fang and David R. Kaeli, "Accelerating mesh-based Monte Carlo method on modern CPU architectures ," Biomed. Opt. Express 3(12), 3223-3230 (2012) | ||
$Summary: SIMD MMC | ||
$Download: https://www.osapublishing.org/boe/abstract.cfm?uri=boe-3-12-3223 | ||
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# [Fang2011] Qianqian Fang, "Comment on 'A study on tetrahedron-based inhomogeneous Monte-Carlo optical simulation'," Biomed. Opt. Express, vol. 2, issue 5, pp. 1258-1264, 2011. | ||
$Summary: MMC ray-tracing comparisons | ||
$Download: https://www.osapublishing.org/boe/abstract.cfm?uri=boe-2-5-1258 | ||
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# [Fang2010] Qianqian Fang, "Mesh-based Monte Carlo method using fast ray-tracing in Plücker coordinates," Biomed. Opt. Express 1(1), 165-175 (2010) | ||
$Summary: original MMC paper | ||
$Download: https://www.osapublishing.org/boe/abstract.cfm?uri=boe-1-1-165 | ||
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-- "Applications" -- | ||
# [Yuan2020] Yaoshen Yuan, Paolo Cassano, Matthew Pias, Qianqian Fang*, (2020) "Transcranial photobiomodulation with near-infrared light from childhood to elderliness: simulation of dosimetry,", Neurophotonics, 7(1), 015009 | ||
$Summary: PBM dosage over lifespan | ||
$Download: https://doi.org/10.1117/1.NPh.7.1.015009 | ||
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# [Brain2Mesh2020] Anh Phong Tran, Shijie Yan, Qianqian Fang*, (2020) "Improving model-based fNIRS analysis using mesh-based anatomical and light-transport models," Neurophotonics, 7(1), 015008 | ||
$Summary: Brain2Mesh - a one-liner for brain mesh generator (http://mcx.space/brain2mesh) | ||
$Download: https://doi.org/10.1117/1.NPh.7.1.015008 | ||
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