bib/refs.bib

@String{acm             = "ACM Press"}
@String{acm_adr         = "New York, NY, USA"}
@String{ieee_cs         = "IEEE Computer Society"}
@String{ieee_cs_ca_adr  = "Los Alamitos, CA, USA"}
@String{j_sync_rad      = "Journal of Synchrotron Radiation"}


@article{decarlo2014tomopy,
  title     = {TomoPy: A framework for the analysis of synchrotron tomographic data},
  author    = {G\"{u}rsoy, Do\v{g}a and De Carlo, Francesco and Xiao, Xianghui and Jacobsen, Chris},
  journal   = j_sync_rad,
  year      = {2014},
  volume    = {21},
  doi       = {10.1107/S1600577514013939}
}

@article{rolo2014cine,
  title     = {In vivo X-ray cine-tomography for tracking morphological dynamics},
  author    = {dos Santos Rolo, Tomy and Ershov, Alexey and van de Kamp, Thomas and Baumbach, Tilo},
  journal   = {Proceedings of the National Academy of Sciences},
  volume    = {111},
  number    = {11},
  pages     = {3921--3926},
  year      = {2014},
  publisher = {National Acad Sciences}
}

@article{xiao2014fast,
  title     = {Fast synchrotron X-ray tomography study of the packing structures of rods with different aspect ratios},
  author    = {Xiao-Dan, Zhang and Cheng-Jie, Xia and Xiang-Hui, Xiao and Yu-Jie, Wang},
  journal   = {Chinese Physics B},
  volume    = {23},
  number    = {4},
  pages     = {044501},
  year      = {2014},
  publisher = {IOP Publishing}
}

@article{mirone2014pyhst2,
  author    = {Mirone, Alessandro and Brun, Emmanuelle and Gouillart, Emmanuelle and Tafforeau, Paul and Kieffer, Jerome},
  title     = {{The PyHST2 hybrid distributed code for high speed tomographic reconstruction with iterative reconstruction and a priori knowledge capabilities}},
  journal   = {Nuclear Instruments and Methods in Physics Research Section B: Beam Interactions with Materials and Atoms},
  year      = {2014},
  volume    = {324},
  pages     = {41--48},
  doi       = {10.1016/j.nimb.2013.09.030},
}

@article{rit2014rtk,
 author     = {Rit, S. and Vila Oliva, M. and Brousmiche, S. and Labarbe, R. and Sarrut, D. and Sharp, G. C.},
 title      = {{The Reconstruction Toolkit (RTK), an open-source cone-beam CT reconstruction toolkit based on the Insight Toolkit (ITK)}},
 journal    = {Journal of Physics: Conference Series},
 year       = {2014},
 volume     = {489},
 pages      = {1--4},
 doi        = {doi:10.1088/1742-6596/489/1/012079},
}

@article{hudspeth2013high,
  title     = {High speed synchrotron x-ray phase contrast imaging of dynamic material response to split Hopkinson bar loading},
  author    = {Hudspeth, M and Claus, B and Dubelman, S and Black, J and Mondal, A and Parab, N and Funnell, C and Hai, F and Qi, ML and Fezzaa, K and others},
  journal   = {Review of Scientific Instruments},
  volume    = {84},
  number    = {2},
  pages     = {025102},
  year      = {2013},
  publisher = {AIP Publishing}
}

@article{sauter2013python,
  author    = {Sauter, Nicholas K. and Hattne, Johan and Grosse-Kunstleve, Ralf W. and Echols, Nathaniel},
  title     = {{New Python-based methods for data processing}},
  journal   = {Acta Crystallographica Section D},
  year      = {2013},
  month     = {Jul},
  volume    = {69},
  number    = {7},
  pages     = {1274--1282},
  doi       = {10.1107/S0907444913000863},
}

@inproceedings{palenstijn2013astra,
 author     = {Palenstij, W. J. and Batenburg, K. J. and Sijbers, J.},
 title      = {{The ASTRA Tomography Toolbox}},
 booktitle  = {Proc. of 13th Int. Conf. on Computational and Mathematical Methods in Science and Engineering},
 year       = {2013},
 pages      = {1139--1145},
 volume     = {3},
}

@inproceedings{liu2013largevolumes,
 author     = {Liu, X. and Boons, S. and Sasov, A.},
 title      = {{Strategies for GPU-based conebeam CT reconstruction for very large data volumes}},
 booktitle  = {Proc. of 12th Int. Meeting Fully 3D Image Reconstruction in Radiology and Nuclear Medecine},
 year       = {2013},
 pages      = {529--532},
}

@article{maier2013conrad,
  author    = {Maier, A. and Hofmann, H. and Berger, M. and Fischer, P. and Schwemmer, C. and Wu, H. and Mueller, K. and Hornegger, J. and Choi, J. and Riess, C. and Keil, A. and Fahrig, R.},
  title     = {{CONRAD--A software framework for cone-beam imaging in radiology}},
  journal   = {Medical Physics},
  year      = {2013},
  volume    = {40},
  number    = {2},
  pages     = {111914-1--111914-8},
  doi       = {10.1118/1.4824926},
}

@article{marone2012regridding,
 author     = {Marone, F. and Stampanoni, M.},
 title      = {{Regridding reconstruction algorithm for real-time tomographic imaging}},
 journal    = j_sync_rad,
 year       = {2012},
 volume     = {19},
 pages      = {1029--1037},
 doi        = {10.1107/S0909049512032864},
}

@inproceedings{xiao2012x,
  title     = {X-ray fast tomography and its applications in dynamical phenomena studies in geosciences at Advanced Photon Source},
  author    = {Xiao, Xianghui and Fusseis, Florian and De Carlo, Francesco},
  booktitle = {Proc. SPIE},
  volume    = {8506},
  pages     = {85060K},
  year      = {2012}
}

@article{yeager2012high,
  title     = {High-speed synchrotron X-ray phase contrast imaging for analysis of low-Z composite microstructure},
  author    = {Yeager, JD and Luo, SN and Jensen, BJ and Fezzaa, K and Montgomery, DS and Hooks, DE},
  journal   = {Composites Part A: Applied Science and Manufacturing},
  volume    = {43},
  number    = {6},
  pages     = {885--892},
  year      = {2012},
  publisher = {Elsevier}
}

@article{dubach2012compiling,
 author     = {Dubach, Christophe and Cheng, Perry and Rabbah, Rodric and Bacon, David F. and Fink, Stephen J.},
 title      = {Compiling a High-level Language for GPUs: (via Language Support for Architectures and Compilers)},
 journal    = {SIGPLAN Not.},
 volume     = {47},
 number     = {6},
 month      = {6},
 year       = {2012},
 issn       = {0362-1340},
 pages      = {1--12},
 doi        = {10.1145/2345156.2254066},
 publisher  = acm,
 address    = acm_adr,
}

@article{hormati2011sponge,
 author     = {Hormati, Amir H. and Samadi, Mehrzad and Woh, Mark and Mudge,
              Trevor and Mahlke, Scott},
 title      = {Sponge: Portable Stream Programming on Graphics Engines},
 journal    = {SIGARCH Comput. Archit. News},
 volume     = {39},
 issue      = {1},
 month      = {3},
 year       = {2011},
 issn       = {0163-5964},
 pages      = {381--392},
 numpages   = {12},
 doi        = {http://doi.acm.org/10.1145/1961295.1950409},
 publisher  = acm,
 address    = acm_adr,
}

@inproceedings{stotzka2011lsdf,
  title     = {Perspective of the Large Scale Data Facility (LSDF) supporting
    nuclear fusion applications},
  author    = {Stotzka, Rainer and Hartmann, Volker and Jejkal, Thomas and
    Sutter, Michael and van Wezel, Jos and Hardt, Marcus and Garcia, Ariel and
      Kupsch, Rainer and Bourov, Serguei},
  booktitle = {Parallel, Distributed and Network-Based Processing (PDP),
    2011 19th Euromicro International Conference on},
  pages     = {373--379},
  year      = {2011},
  organization = {IEEE}
}

@article{mader2011highthroughput,
  author    = {Mader, Kevin and Marone, Federica and Hinterm{\"{u}}ller, Christoph and Mikuljan, Gordan and Isenegger, Andreas and Stampanoni, Marco},
  title     = {{High-throughput full-automatic synchrotron-based tomographic microscopy}},
  journal   = j_sync_rad,
  year      = {2011},
  month     = {Mar},
  volume    = {18},
  number    = {2},
  pages     = {117--124},
  doi       = {10.1107/S0909049510047370},
}

@article{palenstijn2011art,
 author     = {Palenstij, W. J. and Batenburg, K. J. and Sijbers, J.},
 title      = {{Performance improvements for iterative electron tomography reconstruction using graphics processing units (GPUs)}},
 journal    = {Journal of Structural Biology},
 year       = {2011},
 volume     = {176},
 number     = {2},
 pages      = {250--253},
 doi        = {10.1016/j.jsb.2011.07.017},
}

@article{zhang2011gstream,
 author     = { Zhang, Y. and Mueller, F. },
 title      = {{GStream}: A General-Purpose Data Streaming Framework on {GPU}
               Clusters},
 journal    = {International Conference on Parallel Processing},
 volume     = {0},
 issn       = {0190-3918},
 year       = {2011},
 pages      = {245--254},
 doi        = {10.1109/ICPP.2011.22},
 publisher  = ieee_cs,
 address    = ieee_cs_ca_adr,
}

@article{moura2009coroutines,
  author    = {Moura, Ana L\'{u}cia De and Ierusalimschy, Roberto},
  title     = {Revisiting Coroutines},
  journal   = {ACM Trans. Program. Lang. Syst.},
  volume    = {31},
  number    = {2},
  month     = feb,
  year      = {2009},
  issn      = {0164-0925},
  pages     = {6:1--6:31},
  doi       = {10.1145/1462166.1462167},
  publisher = acm,
  address   = acm_adr,
}

@article{rack2009,
  title     = {The micro-imaging station of the TopoTomo beamline at the ANKA synchrotron light source},
  author    = {Rack, A and Weitkamp, T and Bauer Trabelsi, S and Modregger, P and Cecilia, A and dos Santos Rolo, T and Rack, T and Haas, D and Simon, R and Heldele, R and others},
  journal   = {Nuclear Instruments and Methods in Physics Research Section B: Beam Interactions with Materials and Atoms},
  volume    = {267},
  number    = {11},
  pages     = {1978--1988},
  year      = {2009},
  publisher = {Elsevier}
}

@article{momose2009,
  title     = {High-speed X-ray phase imaging and X-ray phase tomography with Talbot interferometer and white synchrotron radiation},
  author    = {Momose, Atsushi and Yashiro, Wataru and Maikusa, Hirohide and Takeda, Yoshihiro},
  journal   = {Optics express},
  volume    = {17},
  number    = {15},
  pages     = {12540--12545},
  year      = {2009},
  publisher = {Optical Society of America},
}

@article{garcia2008,
  author    = {Garcia-Moreno, F. and Rack, A. and Helfen, L. and Baumbach, T. and Zabler, S. and Babcsan, N. and Banhart, J. and Martin, T. and Ponchut, C. and Di Michiel, M.},
  journal   = {Applied Physics Letters},
  title     = {Fast processes in liquid metal foams investigated by high-speed synchrotron x-ray microradioscopy},
  year      = {2008},
  month     = {},
  volume    = {92},
  number    = {13},
  pages     = {134104-134104-3},
  doi       = {10.1063/1.2905748},
  ISSN      = {0003-6951},
}

@article{owens2008,
  title     = {GPU computing},
  author    = {Owens, John D and Houston, Mike and Luebke, David and Green, Simon and Stone, John E and Phillips, James C},
  journal   = {Proceedings of the IEEE},
  volume    = {96},
  number    = {5},
  pages     = {879--899},
  year      = {2008},
  publisher = {IEEE}
}

@article{helfen2007,
  title     = {Synchrotron-radiation computed laminography for high-resolution three-dimensional imaging of flat devices},
  author    = {Helfen, Lukas and Myagotin, Anton and Rack, Alexander and Pernot, Petra and Mikul{\'\i}k, Petr and Di Michiel, Marco and Baumbach, Tilo},
  journal   = {physica status solidi (a)},
  volume    = {204},
  number    = {8},
  pages     = {2760--2765},
  year      = {2007},
  publisher = {Wiley Online Library}
}

@article{uesugi2006,
  title     = {Fast tomography using quasi-monochromatic undulator radiation},
  author    = {Uesugi, K. and Sera, T. and Yagi, N.},
  journal   = {Journal of synchrotron radiation},
  volume    = {13},
  number    = {5},
  pages     = {403--407},
  year      = {2006},
  publisher = {International Union of Crystallography}
}

@article{michiel2005,
  title     = {Fast microtomography using high energy synchrotron radiation},
  author    = {Di Michiel, Marco and Merino, Jose Manuel and Fernandez-Carreiras, David and Buslaps, Thomas and Honkim{\"a}ki, Veijo and Falus, Peter and Martins, Thierry and Svensson, Olof},
  journal   = {Review of Scientific Instruments},
  volume    = {76},
  number    = {4},
  pages     = {043702},
  year      = {2005},
  publisher = {AIP Publishing}
}

@article{arzt2005automation,
  author    = {Steffi Arzt and Antonia Beteva and Florent Cipriani and Solange
      Delageniere and Franck Felisaz and Gabriele Förstner and Elspeth Gordon and
      Ludovic Launer and Bernard Lavault and Gordon Leonard and Trevor Mairs and
      Andrew McCarthy and Joanne McCarthy and Sean McSweeney and Jens Meyer and
      Edward Mitchell and Stephanie Monaco and Didier Nurizzo and Raimond
      Ravelli and Vicente Rey and William Shepard and Darren Spruce and Olof
      Svensson and Pascal Theveneau},
  title     = {Automation of macromolecular crystallography beamlines },
  journal   = {Progress in Biophysics and Molecular Biology },
  volume    = {89},
  number    = {2},
  pages     = {124--152},
  year      = {2005},
  issn      = {0079-6107},
  doi       = {10.1016/j.pbiomolbio.2004.09.003},
}

@article{hentschel2005,
   title    = {Direct iterative reconstruction of computed tomography trajectories (DIRECT)},
   author   = {M. P. Hentschel, A. Lange, J. Schors},
   journal  = {Proc. SPIE},
   volume   = {5766},
   number   = {25},
   year     = {2005}
}

@inproceedings{gotz2003tango,
  author    = {G{\"o}tz, A and Taurel, E and Pons, JL and Verdier, P and Chaize,
              JM and Meyer, J and Poncet, F and Heunen, G and G{\"o}tz, E and Buteau,
              A and others},
  title     = {TANGO a CORBA based Control System},
  booktitle = {ICALEPCS},
  year      = {2003}
}

@article{wang2001,
  title     = {A high-throughput x-ray microtomography system at the Advanced Photon Source},
  author    = {Wang, Yuxin and De Carlo, Francesco and Mancini, Derrick C and McNulty, Ian and Tieman, Brian and Bresnahan, John and Foster, Ian and Insley, Joseph and Lane, Peter and von Laszewski, Gregor and others},
  journal   = {Review of Scientific Instruments},
  volume    = {72},
  number    = {4},
  pages     = {2062--2068},
  year      = {2001},
  publisher = {AIP Publishing}
}

@inproceedings{folk1999hdf5,
  title     = {HDF5: A file format and I/O library for high performance computing applications},
  author    = {Folk, Mike and Cheng, Albert and Yates, Kim},
  booktitle = {Proceedings of Supercomputing},
  volume    = {99},
  year      = {1999}
}

@inproceedings{dalesio1991epics,
  title     = {EPICS architecture},
  author    = {Dalesio, Leo R and Kraimer, MR and Kozubal, AJ},
  booktitle = {ICALEPCS},
  volume    = {91},
  pages     = {92--15},
  year      = {1991}
}

@article{mueller1999,
  title     = {Fast implementations of algebraic methods for three-dimensional reconstruction from cone-beam data},
  author    = {Mueller, Klaus and Yagel, Roni and Wheller, John J},
  journal   = {Medical Imaging, IEEE Transactions on},
  volume    = {18},
  number    = {6},
  pages     = {538--548},
  year      = {1999},
  publisher = {IEEE}
}

@phdthesis{mueller1998,
    author  = {Klaus Mueller},
    title   = {Fast And Accurate Three-Dimensional Reconstruction From Cone-Beam Projection Data Using Algebraic Methods},
    year    = {1998},
    school  = {The Ohio State University}
}

@techreport{danielsson1997,
  title     = {Iterative techniques for projection and backprojection},
  author    = {Danielsson, P.E.},
  year      = {1997},
  institution={Department of Electrical Engineering, Linkoping University}
}

@article{kak1988,
  title     = {Principles of computerized tomographic imaging},
  author    = {Kak, Avinash C and Slaney, Malcolm},
  journal   = {IEEE, New York},
  year      = {1988}
}

@online{nvidiacuda,
  author    = {nvidia},
  title     = {Cuda zone},
  year      = {2014},
  url       = {http://www.nvidia.com/cuda}
}

@online{opencl,
  author    = {Khronos},
  title     = {OpenCL: The open standard for parallel programming of heterogeneous systems},
  year      = {2014},
  url       = {http://www.khronos.org/opencl}
}

@online{pco,
 author     = {PCO},
 title      = {CCD and CMOS camera systems},
 url        = {http://www.pco.de},
 year       = {2014}
}

@misc{khronos:opencl1.2,
  title     = {The {OpenCL} Specification},
  author    = {Khronos},
  editor    = {Munshi, Aaftab},
  number    = {Version 1.2, Revision 19},
  year      = {2012},
  url       = {http://www.khronos.org/opencl},
}