A full list of my publications is available on the ZIB homepage.
Publication List
February 13th, 2013Homberg et al. (2012), Automatic extraction and analysis of realistic pore structures from mCT data for pore space characterization of graded soil
September 12th, 2012Ulrike Homberg, Daniel Baum, Steffen Prohaska, Ute Kalbe, and Karl Josef Witt. Automatic extraction and analysis of realistic pore structures from mCT data for pore space characterization of graded soil. In Proc. 6th Int. Conference on Scour and Erosion (ICSE-6), pages 66–73, 2012.
@inproceedings{Homberg:-2012-ICSE,
Author = {Ulrike Homberg and Daniel Baum and Steffen Prohaska
and Ute Kalbe and Karl Josef Witt},
Booktitle = {Proc. 6th Int. Conference on Scour and Erosion
(ICSE-6)},
Pages = {66--73},
Title = {Automatic Extraction and Analysis of Realistic Pore
Structures from {$\mu$CT} Data for Pore Space Characterization
of Graded Soil},
Year = {2012}}
Weber et al. (2012), Automated tracing of microtubules in electron tomograms of plastic embedded samples of caenorhabditis elegans embryos
May 12th, 2012
Britta Weber, Garrett Greenan, Steffen Prohaska, Daniel Baum, Hans-Christian Hege, Thomas Müller-Reichert, Anthony A. Hyman, and Jean-Marc Verbavatz. Automated tracing of microtubules in electron tomograms of plastic embedded samples of caenorhabditis elegans embryos. Journal of Structural Biology, 178(2):129–138, 2012. 10.1016/j.jsb.2011.12.004.
[journal software]
@article{Weber:JOSB-2012-178-129----138,
Author = {Britta Weber and Garrett Greenan and Steffen Prohaska
and Daniel Baum and Hans-Christian Hege
and Thomas M{\"u}ller-Reichert and Anthony A. Hyman
and Jean-Marc Verbavatz},
Journal = {Journal of Structural Biology},
Number = {2},
Pages = {129 -- 138},
Title = {Automated tracing of microtubules in electron tomograms
of plastic embedded samples of Caenorhabditis elegans embryos},
Volume = {178},
Year = {2012}}
Homberg et al. (2011), Describing and analyzing the dual structures of porous media
December 12th, 2011Ulrike Homberg, Daniel Baum, and Steffen Prohaska. Describing and analyzing the dual structures of porous media. In Proc. 3D-Microstructure Meeting, pages 24–25, 2011.
@inproceedings{Homberg:2011--24,
Author = {Ulrike Homberg and Daniel Baum and Steffen Prohaska},
Booktitle = {Proc. {3D}-Microstructure Meeting},
Pages = {24--25},
Title = {Describing and Analyzing the Dual Structures of Porous
Media},
Year = {2011}}
Ehrig et al. (2011), Comparison of crack detection methods for analyzing damage processes in concrete with computed tomography
December 12th, 2011
Karsten Ehrig, Jürgen Goebbels, Dietmar Meinel, Olaf Paetsch, Steffen Prohaska, and Valentin Zobel. Comparison of crack detection methods for analyzing damage processes in concrete with computed tomography. In Proc. Int. Symp. Digital Industrial Radiology and Computed Tomography, 2011.
[pdf]
@inproceedings{Ehrig:2011,
Author = {Karsten Ehrig and J{\"u}rgen Goebbels
and Dietmar Meinel and Olaf Paetsch and Steffen Prohaska
and Valentin Zobel},
Booktitle = {Proc. Int. Symp. Digital Industrial Radiology
and Computed Tomography},
Title = {Comparison of Crack Detection Methods for Analyzing
Damage Processes in Concrete with Computed Tomography},
Year = {2011}}
Streicher et al. (2011), 3-D-Visualisierung von Radar- und Ultraschallecho-Daten mit ZIBAmira
December 12th, 2011
Doreen Streicher, Olaf Paetsch, Robert Seiler, Steffen Prohaska, Martin Krause, and Christian Boller. 3-D-Visualisierung von Radar- und Ultraschallecho-Daten mit ZIBAmira. In Proc. DGZfP-Jahrestagung 2011, 2011.
[pdf]
@inproceedings{Streicher:2011,
Author = {Doreen Streicher and Olaf Paetsch and Robert Seiler
and Steffen Prohaska and Martin Krause and Christian Boller},
Booktitle = {Proc. {DGZfP}-{J}ahrestagung 2011},
Title = {3-{D}-{V}isualisierung von {R}adar- und
{U}ltraschallecho-{D}aten mit {ZIBAmira}},
Year = {2011}}
Weber et al. (2011), Fast tracing of microtubule centerlines in electron tomograms
December 12th, 2011
Britta Weber, Marit Möller, Jean-Marc Verbavatz, Daniel Baum, Hans-Christian Hege, and Steffen Prohaska. Fast tracing of microtubule centerlines in electron tomograms. In IEEE Symposium on Biological Data Visualization, 2011.
[pdf]
@inproceedings{Weber:2011,
Author = {Britta Weber and Marit M{\"o}ller
and Jean-Marc Verbavatz and Daniel Baum and Hans-Christian Hege
and Steffen Prohaska},
Booktitle = {IEEE Symposium on Biological Data Visualization},
Title = {Fast Tracing of Microtubule Centerlines in Electron
Tomograms},
Year = {2011}}
Clasen et al. (2011), Level of detail for trees using clustered ellipsoids
December 12th, 2011
Malte Clasen, Philip Paar, and Steffen Prohaska. Level of detail for trees using clustered ellipsoids. Technical Report 11-41, ZIB, Takustr.7, 14195 Berlin, 2011.
[pdf]
@techreport{Clasen:2011,
Address = {Takustr.7, 14195 Berlin},
Author = {Malte Clasen and Philip Paar and Steffen Prohaska},
Institution = {ZIB},
Number = {11-41},
Title = {Level of Detail for Trees Using Clustered Ellipsoids},
Year = {2011}}
Should I sign the Research Without Walls pledge?
October 22nd, 2011Slashdot thinks that the Research Without Walls pledge could be a tipping point for open access CS research.
Kleinfeld et al. (2011), Large-scale automated histology in the pursuit of connectomes
October 22nd, 2011
David Kleinfeld, Arjun Bharioke, Pablo Blinder, Davi D. Bock, Kevin L. Briggman, Dmitri B. Chklovskii, Winfried Denk, Moritz Helmstaedter, John P. Kaufhold, Wei-Chung Allen Lee, Hanno S. Meyer, Kristina D. Micheva, Marcel Oberlaender, Steffen Prohaska, R. Clay Reid, Stephen J. Smith, Shinya Takemura, Philbert S. Tsai, and Bert Sakmann. Large-scale automated histology in the pursuit of connectomes. The Journal of Neuroscience, 31(45): 16125–16138, 2011. 10.1523/JNEUROSCI.4077-11.2011.
[preprint journal]
@article{Kleinfeld:JNS-2011,
Author = {Kleinfeld, David and Bharioke, Arjun and Blinder, Pablo
and Bock, Davi D. and Briggman, Kevin L. and Chklovskii, Dmitri B.
and Denk, Winfried and Helmstaedter, Moritz and Kaufhold, John P.
and Lee, Wei-Chung Allen and Meyer, Hanno S.
and Micheva, Kristina D. and Oberlaender, Marcel
and Prohaska, Steffen and Reid, R. Clay and Smith, Stephen J.
and Takemura, Shinya and Tsai, Philbert S. and Sakmann, Bert},
Journal = {The Journal of Neuroscience},
Number = {45},
Pages = {16125-16138},
Title = {Large-Scale Automated Histology in the Pursuit of Connectomes},
Volume = {31},
Year = {2011},
doi={10.1523/JNEUROSCI.4077-11.2011}
}
Rigort et al. (2011), Automated segmentation of electron tomograms for a quantitative description of actin filament networks
October 21st, 2011
Alexander Rigort, David Günther, Reiner Hegerl, Daniel Baum, Britta Weber, Steffen Prohaska, Ohad Medalia, Wolfgang Baumeister, and Hans-Christian Hege. Automated segmentation of electron tomograms for a quantitative description of actin filament networks. J Struct Biol, 178:135–144, Sep 2011. 10.1016/j.jsb.2011.08.012.
[article, software]
@article{Rigort:JSB-2011,
Author = {Rigort, Alexander and G{\"u}nther, David and Hegerl, Reiner and
Baum, Daniel and Weber, Britta and Prohaska, Steffen and
Medalia, Ohad and Baumeister, Wolfgang and Hege, Hans-Christian},
Journal = {J Struct Biol},
Pages = {135--144},
Volume = {178},
Month = {Sep},
Title = {Automated segmentation of electron tomograms for a quantitative
description of actin filament networks},
Year = {2011},
Doi = {10.1016/j.jsb.2011.08.012}}
Günther et al. (2011), Efficient computation of a hierarchy of discrete 3d gradient vector fields
July 21st, 2011
D. Günther, J. Reininghaus, S. Prohaska, T. Weinkauf, and H.-C. Hege. Efficient computation of a hierarchy of discrete 3d gradient vector fields. In Topological Methods in Data Analysis and Visualization II, pages 15–29. Springer, 2011.
[pdf]
@inproceedings{Gunther:2011,
Author = {D. G{\"u}nther and J. Reininghaus and S. Prohaska
and T. Weinkauf and H.-C. Hege},
Booktitle = {Topological Methods in Data Analysis and Visualization II},
Pages = {15--29},
Publisher = {Springer},
Title = {Efficient Computation of a Hierarchy of Discrete 3D
Gradient Vector Fields},
Year = {2011}}
Ritter et al. (2011), Osteocytes number and volume in osteoporotic and in healthy bone biopsies analysed using synchrotron CT: a pilot study
June 21st, 2011
Z. Ritter, A. Staude, S Prohaska, R. Brand, A. Friedmann, H.C. Hege, J. Goebbels, and D. Felsenberg. Osteocytes number and volume in osteoporotic and in healthy bone biopsies analysed using synchrotron CT: a pilot study. In Proc. ISB 2011, 2011.
[abstract]
@inproceedings{Ritter:2011,
Author = {Ritter, Z. and Staude, A. and Prohaska, S and Brand, R. and
Friedmann, A. and Hege, H.C. and Goebbels, J. and Felsenberg, D.},
Booktitle = {Proc. ISB 2011},
Title = {Osteocytes number and volume in osteoporotic and in healthy
bone biopsies analysed using Synchrotron {CT}: a pilot study},
Year = {2011}}
Why most published research findings are false
April 7th, 2011In detail at PLoS Medicine, and in brief at xkcd.
Binner et al. (2010), Identification of descriptive parameters of the soil pore structure using experiments and CT data
December 12th, 2010Richard Binner, Ulrike Homberg, Steffen Prohaska, Ute Kalbe, and Karl Josef Witt. Identification of descriptive parameters of the soil pore structure using experiments and CT data. In Proc. 5th Int. Conference on Scour and Erosion (ICSE-5), pages 397–407, 2010.
@inproceedings{Binner:2010,
Author = {Richard Binner and Ulrike Homberg and Steffen Prohaska
and Ute Kalbe and Karl Josef Witt},
Booktitle = {Proc. 5th Int. Conference on Scour and Erosion
({ICSE-5})},
Pages = {397--407},
Title = {Identification of Descriptive Parameters of the Soil
Pore Structure using Experiments and {CT} Data},
Year = {2010}}
Clasen, M. and Prohaska, S. (2010), Image-Error-Based Level of Detail for Landscape Visualization
December 5th, 2010
Clasen, M. and Prohaska, S. (2010). Image-Error-Based Level of Detail for Landscape Visualization. In Proc. VMV 2010: Vision, Modeling and Visualization, pages 267–274.
[pdf, supplement]
@inproceedings{Clasen:VMV-2010--267-274,
Author = {Malte Clasen and Steffen Prohaska},
Booktitle = {Proc. VMV 2010: Vision, Modeling and Visualization},
Pages = {267-274},
Title = {{Image-Error-Based Level of Detail for Landscape Visualization}},
Year = {2010}}
git-subtree
July 29th, 2010Ziegler et al. (2010), Opportunities and challenges for digital morphology
July 7th, 2010
Ziegler, A., Ogurreck, M., Steinke, T., Beckmann, F., Prohaska, S., and Ziegler, A. (2010). Opportunities and challenges for digital morphology. Biology Direct, 5(1):45. doi 10.1186/1745-6150-5-45.
[Open Access]
@article{Ziegler:BiologyDirect-2010-5-45,
Author = {Ziegler, Alexander and Ogurreck, Malte
and Steinke, Thomas and Beckmann, Felix
and Prohaska, Steffen and Ziegler, Andreas},
Journal = {Biology Direct},
Number = {1},
Pages = {45},
Title = {Opportunities and challenges for digital morphology},
Volume = {5},
Year = {2010},
Doi = {10.1186/1745-6150-5-45}}
Reininghaus et al. (2010), TADD: A computational framework for data analysis using discrete morse theory
July 7th, 2010
Reininghaus, J., Günther, D., Hotz, I., Prohaska, S., and Hege, H.-C. (2010). TADD: A computational framework for data analysis using discrete morse theory. In Fukuda, K., van der Hoeven, J., Joswig, M., and Takayama, N., editors, Mathematical Software – ICMS 2010, volume 6327 of Lecture Notes in Computer Science, pages 198–208. Springer.
[pdf]
@inproceedings{Reininghaus:ICMS-2010,
Author = {Jan Reininghaus and David G{\"u}nther and Ingrid Hotz
and Steffen Prohaska and Hans-Christian Hege},
Booktitle = {Mathematical Software -- ICMS 2010},
Crossref = {conf:icms:2010},
Ee = {http://dx.doi.org/10.1007/978-3-642-15582-6_35},
Pages = {198-208},
Title = {{TADD}: A Computational Framework for Data Analysis
Using Discrete Morse Theory},
Year = {2010}}
@proceedings{conf:icms:2010,
Booktitle = {Mathematical Software -- ICMS 2010},
Editor = {Komei Fukuda and Joris van der Hoeven
and Michael Joswig and Nobuki Takayama},
Ee = {http://dx.doi.org/10.1007/978-3-642-15582-6},
Isbn = {978-3-642-15581-9},
Publisher = {Springer},
Series = {Lecture Notes in Computer Science},
Title = {Third International Congress on Mathematical Software,
Kobe, Japan, September 13-17, 2010. Proceedings},
Volume = {6327},
Year = {2010}}
Lindow et al. (2010), Accelerated visualization of dynamic molecular surfaces
July 7th, 2010Lindow, N., Baum, D., Prohaska, S., and Hege, H.-C. (2010). Accelerated visualization of dynamic molecular surfaces. Comput. Graph. Forum, 29:943–952.
[pdf]
@article{Lindow:CGA-2010-29-943,
Author = {Norbert Lindow and Daniel Baum
and Steffen Prohaska and Hans-Christian Hege},
Journal = {Comput. Graph. Forum},
Pages = {943--952},
Title = {Accelerated Visualization of Dynamic Molecular Surfaces},
Volume = {29},
Year = {2010}}
Kuß et al. (2010), Effective techniques to visualize filament-surface relationships
July 7th, 2010Kuß, A., Gensel, M., Meyer, B., Dercksen, V. J., and Prohaska, S. (2010). Effective techniques to visualize filament-surface relationships. Comput. Graph. Forum, 29:1003–1012.
[pdf]
@article{Kuss:CGA-2010-29-1003,
Author = {Anja Ku{\ss} and Maria Gensel
and Bj{\"o}rn Meyer and Vincent J. Dercksen
and Steffen Prohaska},
Journal = {Comput. Graph. Forum},
Pages = {1003-1012},
Title = {Effective Techniques to Visualize Filament-Surface
Relationships},
Volume = {29},
Year = {2010}}
Recommendations for Independent Scholarly Publication of Data Sets
June 27th, 2010- Jonathan Rees’s Recommendations for Independent Scholarly Publication of Data Sets are available from the Science Common’s reading room [1]
GeForce GTX 480 and 470
March 27th, 2010- Tom’s Hardware reports comprehensive benchmarks of the new NVIDIA cards. [1]
Processing.js
March 7th, 2010Processing.js is a JavaScript port of Processing. See the article Comparing native Processing & Processing.js for a comparison to native Processing.
Whatever Happened To Programming?
March 7th, 2010- Whatever Happened To Programming? [1]
Lean programming (the fridge vs the radiator)
March 7th, 2010Lean programming (the fridge vs the radiator) by Jason Yip [1]
The Ignite presentation method
March 7th, 2010Multi-Voting
February 27th, 2010Kuß et al. (2009), Using ontologies for the visualization of hierarchical neuroanatomical structures
December 31st, 2009Kuß, A., Prohaska, S., and Rybak, J. (2009). Using ontologies for the visualization of hierarchical neuroanatomical structures. In Frontiers in Neuroinformatics. Conference Abstract: 2nd INCF Congress of Neuroinformatics. doi 10.3389/conf.neuro.11.2009.08.017.
[pdf]
@inproceedings{Kuss:INCF-2009,
Author = {Anja Ku{\ss} and Steffen Prohaska
and J{\"u}rgen Rybak},
Booktitle = {Frontiers in Neuroinformatics.
Conference Abstract: 2nd INCF Congress
of Neuroinformatics},
Title = {Using Ontologies for the Visualization
of Hierarchical Neuroanatomical Structures},
Year = {2009},
Doi = {10.3389/conf.neuro.11.2009.08.017}}
Kanban for Software Engineering
November 28th, 2009- The Limited WIP Society is intended to be the home of kanban for software development community. [1]
LSB Infrastructure Project, ABI compliance checker
August 22nd, 2009Mehlhorn et al. (2008), Modelling and analysis of particle and pore structures in soils
August 21st, 2009Mehlhorn, T., Prohaska, S., Homberg, U., and Slowik, V. (2008). Modelling and analysis of particle and pore structures in soils. In Proc. Work. Internal Erosion 2008, number 21 in Schriftenreihe Geotechnik, pages 53–60. Bauhaus-Universität Weimar.
[pdf]
@inproceedings{Mehlhorn:InternalErosion-2008,
Author = {Thobias Mehlhorn and Steffen Prohaska
and Ulrike Homberg and Volker Slowik},
Booktitle = {Proc. Work. Internal Erosion 2008},
Number = {21},
Pages = {53--60},
Publisher = {Bauhaus-Universit{\"a}t Weimar},
Series = {Schriftenreihe Geotechnik},
Title = {Modelling and Analysis of Particle and Pore Structures in Soils},
Year = {2008}}
Homberg et al. (2008). Determining geometric grain structures from x-ray micro-tomograms of gradated soils
August 21st, 2009Homberg, U., Binner, R., Prohaska, S., Dercksen, V. J., Kuß, A., and Kalbe, U. (2008). Determining geometric grain structures from x-ray micro-tomograms of gradated soils. In Proc. Work. Internal Erosion 2008, number 21 in Schriftenreihe Geotechnik, pages 37–52. Bauhaus-Universität Weimar.
[pdf]
@inproceedings{Homberg:InternalErosion-2008,
Author = {Ulrike Homberg and Richard Binner
and Steffen Prohaska and Vincent J. Dercksen and Anja Ku{\ss}
and Ute Kalbe},
Booktitle = {Proc. Work. Internal Erosion 2008},
Number = {21},
Pages = {37--52},
Publisher = {Bauhaus-Universit{\"a}t Weimar},
Series = {Schriftenreihe Geotechnik},
Title = {Determining Geometric Grain Structures from
X-Ray Micro-Tomograms of Gradated Soils},
Year = {2008}}
Semar et al. (2008). Conditions for suffosive erosion phenomena in soils
August 21st, 2009Semar, O., Binner, R., Homberg, U., Kalbe, U., Mehlhorn, T., Prohaska, S., Slowik, V., and Witt, J. (2008). Conditions for suffosive erosion phenomena in soils. In Proc. Work. Internal Erosion 2008, number 21 in Schriftenreihe Geotechnik, pages 29–35. Bauhaus-Universität Weimar.
[pdf]
@inproceedings{Semar:InternalErosion-2008,
Author = {Olivier Semar and Richard Binner and Ulrike Homberg
and Ute Kalbe and Thobias Mehlhorn and Steffen Prohaska
and Volker Slowik and Josef Witt},
Booktitle = {Proc. Work. Internal Erosion 2008},
Number = {21},
Pages = {29--35},
Publisher = {Bauhaus-Universit{\"a}t Weimar},
Series = {Schriftenreihe Geotechnik},
Title = {Conditions for Suffosive Erosion Phenomena in Soils},
Year = {2008}}
CUDA, Clean Code Developer
August 15th, 2009Safer Software, GFS II
August 14th, 2009Git 1.6.3.2 on Windows
June 8th, 2009Git 1.6.3.2 on Windows is available at http://code.google.com/p/msysgit/downloads.
Dercksen et al. (2009): Automatic alignment of stacks of filament data
May 22nd, 2009Dercksen, V. J., Weber, B., Günther, D., Oberlaender, M., Prohaska, S., and Hege, H.-C. (2009). Automatic alignment of stacks of filament data. In Proc. 2009 IEEE Int. Symp. on Biomedical Imaging: From Nano to Macro (ISBI), pages 971–974.
[pdf]
@inproceedings{Dercksen:ISBI-2009,
Author = {Vincent J. Dercksen and Britta Weber and David G{\"u}nther
and Marcel Oberlaender and Steffen Prohaska and Hans-Christian Hege},
Booktitle = {Proc. 2009 IEEE Int. Symp. on Biomedical Imaging:
From Nano to Macro (ISBI)},
Pages = {971--974},
Title = {Automatic Alignment of Stacks of Filament Data},
Year = {2009}}
Petz et al. (2009): Hierarchical vortex regions in swirling flow
April 24th, 2009Petz, C., Kasten, J., Prohaska, S., and Hege, H.-C. (2009). Hierarchical vortex regions in swirling flow. Computer Graphics Forum, 28(3):863–870.
[pdf]
@article{Petz:EuroVis-2009,
Author = {Christoph Petz and Jens Kasten and Steffen Prohaska
and Hans-Christian Hege},
Journal = {Computer Graphics Forum},
Number = {3},
Pages = {863--870},
Title = {Hierarchical Vortex Regions in Swirling Flow},
Volume = {28},
Year = {2009}}
Rosanwo et al. (2009): Dual streamline seeding
April 9th, 2009 Rosanwo, O., Petz, C., Prohaska, S., Hotz, I., and Hege, H.-C. (2009). Dual streamline seeding. In Proc. Pacific Vis ’09, pages 9–16.
[pdf]
@inproceedings{Rosanwo:PacificVis-2009,
Author = {Olufemi Rosanwo and Christoph Petz and Steffen Prohaska
and Ingrid Hotz and Hans-Christian Hege},
Booktitle = {Proc. Pacific Vis '09},
Pages = {9--16},
Title = {Dual Streamline Seeding},
Year = {2009}}
Rosanwo et al. (2008): Dual streamline seeding – method and implementation
February 13th, 2009Rosanwo, O., Petz, C., Prohaska, S., Hotz, I., and Hege, H.-C. (2008). Dual streamline seeding – method and implementation. ZIB Report ZR-08-49. [pdf]
@techreport{DualStreamlineSeeding-ZR-05-49,
Author = {Olufemi Rosanwo and Christoph Petz and Steffen Prohaska
and Ingrid Hotz and Hans-Christian Hege},
Institution = {Zuse Institute Berlin},
Month = {December},
Number = {ZR-08-49},
Title = {Dual Streamline Seeding - Method and Implementation},
Year = {2008}}
eigenfactor.org
February 8th, 2009eigenfactor.org is a free source to search for influential journals in a specific research field. It provides lists ranked by influence based on citation analysis, similar to but different in detail from ISI’s impact factor (see Impact Factor and Citation Index on Wikipedia).
Here are direct links to some specific areas:
COMPUTER IMAGING,
MEDICAL IMAGING,
COMPUTER SCIENCE,
FLUID MECHANICS,
MOLECULAR AND CELL BIOLOGY,
NEUROSCIENCE.
Amdahl’s Law in the Multicore Era
February 8th, 2009This Google tech talk presentation by Mark D. Hill is very worthwhile to watch. Based on a few fundamental assumptions, Hill develops an extended version of Amdahl’s Laws and discusses whether processor designers should focus on improving the performance of single cores or on increasing the number of cores. He concludes that they should do both.
Kuß et al. (2008): Ontology-based visualization of hierarchical neuroanatomical structures
October 11th, 2008Git 1.6.0.2 on Windows
September 21st, 2008Git 1.6.0.2 on Windows is available at http://code.google.com/p/msysgit/downloads.
Git 1.5.6.1 on Windows
July 1st, 2008Git 1.5.6.1 on Windows is available at http://code.google.com/p/msysgit/downloads. This release brings a fixed msys-1.0.dll that supports Vista. The 1.5.6 release was broken in this regards.
Git 1.5.6 on Windows
June 22nd, 2008Git 1.5.6 on Windows is available at http://code.google.com/p/msysgit/downloads.
AMD’s Linux Support for their GPUs competitive?
June 20th, 2008Michael Larabel reports on Phoronix that AMD has greatly improved Linux support for their GPUs. Michael writes that drivers are now competitive with NVIDIA’s drivers.
Medical Apps on the iPhone
June 10th, 2008Here are two things I found particularly interesting while watching the WWDC 2008 Keynote:
At 45:30 S. Mark Williams from Modality introduces a medical learning application for anatomy running on the iPhone 2.0 API.
At 48:30 Mark Cain from MIMvista introduces a combined PET-CT viewer running on the iPhone 2.0 API.
goosh
June 3rd, 2008Shell aficionados will immediately get hooked on goosh.org, the new (unofficial) interface to Google.
CT-Reconstruction With 8 GPUs
May 31st, 2008Slashdot links to an article on DV Hardware that presents work by the Vision Lab of the University of Antwerp on GPU-based CT-reconstruction. The researchers gave their “desktop supercomputer” the name FASTRA. Watching their official movie on YouTube, I recognized around 3:30 that they might be using our software Amira for visualizing their “test patient” Bob.
Sahner et al. (2008): Extraction Of Feature Lines On Surface Meshes Based On Discrete Morse Theory
April 22nd, 2008Git 1.5.5 on Windows
April 13th, 2008Git 1.5.5 is out and the Windows setup is available from http://code.google.com/p/msysgit/downloads. This release handles Windows line endings well. The release is, however, still tagged with preview because full support for case insensitive filesystems is not yet included.
ssh-agent on Mac OS X
April 12th, 2008I recently installed Mac OS X 10.5 alias Leopard and since then I was wondering how the behavior of ssh-agent changed. The GUI application SSH Agent no longer works as it did on 10.4, instead a requester opens whenever I start an ssh connection.
The reason is that ssh-agent is now managed by launchd. David Dribin nicely describes the details in his blog and also gives advice how you can increase security even more.
MacVim
April 3rd, 2008Today, I discovered MacVim, which is a port of the text editor Vim that seamlessly integrates with OS X. The integration includes an input manager that supports using Vim as an external editor in any Cocoa application, including Mail.app. I was always looking for such an integration, which allows me to write the body of my mails in Vim but use Mail.app for adding attachments and selecting addresses from my address book.
Although MacVim is only available as a snapshot release it works out of the box. Just download the snapshot, unpack it, move it to your Application, start MacVim, and select ‘Preferences > Integration > Install’ to activate MacVim as an external editor.
Great work. Thanks Björn. I am wondering if Steve sent him a new Mac. Björn would deserve it.
Slashdot: Physics Journal May Reconsider Wikipedia Ban
March 15th, 2008A Slashdot post reports that Physical Review Letters (PRL) will reconsider its copyright policy, which currently does not allow authors to submit material to Wikipedia that is based on their published work. This happens after Jonathan Oppenheim and co-authors asked for a modified right agreement that would allow them to contribute to Wikipedia. Instead of agreeing, PRL withdrew acceptance of two articles. After protests against this decision, PRL plans to review its copyright policy at a meeting in May.
Git 1.5.4 on Windows
February 3rd, 2008Git 1.5.4 is out and the Windows setup is available from http://code.google.com/p/msysgit/downloads. The Windows release is tagged as preview because support for line endings and case insensitive filesystems is still not satisfactory.
Petz et al. (2008): Near-Wall Flow Visualization in Flattened Surface Neighborhoods
January 25th, 2008Our submission to SimVis 2008 was accepted:
Petz, C., Prohaska, S., Goubergrits, L., Kertzscher, U., and Hege, H.-C. (2008). Near-wall flow visualization in flattened surface neighborhoods. In Proc. SimVis 2008. [bib] [pdf]
Storing Scientific Data at Google?
January 20th, 2008A post on Slashdot reports that Google will soon offer free storage for massive scientific data on http://research.google.com/. Alexis Madrigal mentions more details in a post on Wired. Pimm’s post on the same topic displays the device to send data on slide 10/16. Google seems to plan to collect data by shipping hard drives.
Maybe I’ll try with the 8 GByte micro-CT data set of a human vertebral body, which we published in 2005. Or is is too small for Google?
New Homepage
January 19th, 2008I decided to replace my old XML/XLST-based homepage by a WordPress blog. The old homepage was an interesting exercise about XML technologies. But lately I became too lazy to maintain the XML source and started thinking about a new way of publishing. I browsed a bit and found out that Malte Clasen’s page is based on WordPress, which seems to be a useful tool. So I decided to follow his choice.
I completed only the very basic setup for which I migrated some parts of my old homepage to the new blog style. Up to now, only publications and talks are available as blog categories. Everything else remains at the old location. I also did not yet work on the design of my new page. It is still based on WordPress’s default Kubrick theme.
Skeleton-Based Visualization of Massive Voxel Objects with Network-Like Architecture
August 17th, 2007I published my PhD thesis at the University of Potsdam:
Prohaska, S. (2007). Skeleton-Based Visualization of Massive Voxel Objects with Network-Like Architecture. PhD thesis, University of Potsdam. [bib]
The abstract and full text is available at the university’s publication server:
Talks up to mid 2007
June 30th, 2007I restructured my homepage and copied the old list of my talks below to make the information available on this new homepage.
| April 25, 2007 |
Visuelle Datenanalyse mit Amira |
HLRN-Workshop “Graphisches Postprocessing”. |
|||
| February 27, 2007 |
Analysis of 3D Data in Geo-Sciences: Visualization and Feature Extraction |
Workshop on Rock Mechanics and Logistics in Mining. |
|||
| April 6, 2006 |
Interaktive Visualisierung und Datenanalyse: Herausforderungen durch wachsende Datenmengen |
GeoVis 2006. |
paper | ||
| October 17, 2005, 10:40 |
Rekonstruktion von Blutgefäßnetzwerken |
Neuro Workshop. |
slides | ||
| April 27, 2005, 11:00 |
Highly Interactive Data Analysis and Visualization with Amira |
SGI VizDays. |
sgi | ||
| April 21, 2005, 20:30 |
Interactive Visualization of Large Remote AMR Data |
Visualization Workshop. |
talk workshop |
||
| February 3, 2005, 10:30 |
Remote Data Access for Interactive Visualization |
13th Annual Mardi Gras Conference: Frontiers of Grid Applications and Technologies. |
paper talk conference |
||
| October 26, 2004, 14:00 |
Interactive Visual Data Analysis of Terascale Data: An Achieveable Goal? |
CCT Seminar. |
talk CCT@LSU |
||
| October 14, 2004, 13:45, Large Data Session |
Interactive Exploration of Large Remote Micro-CT Scans |
IEEE Visualization. |
paper talk movie conference |
||
| May 25, 2004 |
Exploring High-Resolution Medical Image Data |
BIRS Workshop on Mathematical Foundations of Scientific Visualization, Computer Graphics, and Massive Data Exploration. |
talk.pdf workshop |
||
| May 21, 2003, 10:00, Medical Care Session |
A Virtual Laboratory for Assessment of Bone Biopsies |
14th IAA Humans in Space Symposium. |
talk.pdf conference abstract.pdf |
||
| March 28, 2003, 10:30 |
Interactive Visualization to Support Quantification of Bone Biopsies |
2nd European Congress “Achievements in Space Medicine into Health Care Practice and Industry”. |
talk.pdf abstract@conference abstract.pdf |
||
| November 18, 2002 |
Display and Handling of Large 3D Images for Analysis of Micro-Vascular Networks |
Towards a Research Network on Imaging and Biomechanics of the Brain Microcirculation. Workshop. |
talk.pdf abstract.pdf |
||
| October 30, 2002 |
Fast Visualization of Plane-Like Structures in Voxel Data |
IEEE Visualization 2002. |
talk.pdf (5.5 MB) paper.pdf |
||
| July 27 – August 2, 2002 |
Advanced Visualization with amira and amiraVR |
Training class. |
webpage | ||
| June 27, 2002, 17:30 |
Analysis of Microvascular Networks |
Summer School on Massive Data Sets. |
webpage talk.pdf |
||
| June 3, 2002, 13:30 |
Visual Analysis of Trabecular Bone Structure |
European Symposium on “Life in Space for Life on Earth”. |
talk.pdf conference abstract.pdf |
Publications up to 2006
December 31st, 2006I restructured my homepage. To maintain all information I copied the content of my old list of publications here:
![]() |
Andrei Hutanu, Gabrielle Allen, Stephen D. Beck, Petr Holub, Hartmut Kaiser, Archit Kulshrestha, Milos Liska, Jon MacLaren, Ludek Matyska, Ravi Paruchuri, Steffen Prohaska, Edward Seidel, Brygg Ullmer, Shalini Venkataraman |
Future Generation Comp. Syst, 22(8):1004–1010, 2006 | paper | ||
![]() |
Céline Fouard, Grégoire Malandain, Steffen Prohaska, Malte Westerhoff |
IEEE Trans. Medical Imaging, 25(10):1319, 2006 | paper | ||
![]() |
Steffen Prohaska |
Kartographische Schriften: Aktuelle Entwicklungen in Geoinformation und Visualisierung (GEOVIS 2006), volume 10, p. 103–110, 2006 | paper | ||
![]() |
Francis Cassot, Frederic Lauwers, Céline Fouard, Steffen Prohaska, Valerie Lauwer-Cances |
Microcirculation, 13:15–32, 2006 | paper | ||
![]() |
ESA MAP Team AO-99-030 |
SP-1290: Microgravity Applications Programme: Successful Teaming of Science and Industry, Ed.: A. Wilson, European Space Agency, p. 282–305, 2005 | paper | ||
![]() |
Ralf Kähler, Steffen Prohaska, Andrei Hutanu, Hans-Christian Hege |
Proc. IEEE Visualization ’05, p. 175–182, 2005 | paper | ||
![]() |
Céline Fouard, Grégoire Malandain, Steffen Prohaska, Malte Westerhoff |
INRIA, Research Report, 5581, 2005 | paper | ||
![]() |
Hans-Christian Hege, Tino Weinkauf, Steffen Prohaska, Andrei Hutanu |
JSME Int. J., Series B, 48(2):241, 2005 | |||
![]() |
Vincent Jasper Dercksen, Steffen Prohaska, Hans-Christian Hege |
IAPR Conference on Machine Vision Applications, Tsukuba, Japan, 2005 | paper | ||
![]() |
J. S. Thomsen, A. Laib, B. Koller, S. Prohaska, Li. Mosekilde, W. Gowin |
J. Microscopy, 218:171, 2005 | paper | ||
![]() |
Steffen Prohaska, Andrei Hutanu |
Proc. 13th Annual Mardi Gras Conf.: Frontiers of Grid Applications and Technologies, p. 17–22, 2005 |
paper talk |
||
![]() |
Alexei Zaikin, Peter Saparin, Jürgen Kurths, Steffen Prohaska, Wolfgang Gowin |
Int. J. Bifurcation and Chaos, 15(9):2995–3009, 2005 | paper | ||
![]() |
Steffen Prohaska, Matthew Dreher, Mark W. Dewhirst, Ashutosh Chilkoti, Axel R. Pries, Malte Westerhoff, Annemiek J. M. Cornelissen |
J. Vascular Research, 41:463, 2004 |
abstract poster |
||
![]() |
Hans-Christian Hege, Tino Weinkauf, Steffen Prohaska, Andrei Hutanu |
Proc. Fourth International Symposium on Advanced Fluid Information and Transdisciplinary Fluid Integration, Sendai, Japan, 2004 | extended abstract | ||
![]() |
Steffen Prohaska, Andrei Hutanu, Ralf Kähler, Hans-Christian Hege |
Proc. IEEE Visualization ’04, p. 345–352, Austin, Texas, 2004 |
paper talk movie data set |
||
|
Peter Saparin, Jesper S. Thomsen, Steffen Prohaska, Alexei Zaikin, Jürgen Kurths, Hans-Christian Hege, Wolfgang Gowin |
Acta Astronautica, 56(8):820–830, 2005 | paper | |||
|
Céline Fouard, Grégoire Malandain, Steffen Prohaska, Malte Westerhoff, Francis Cassot, Christophe Mazel, Didier Asselot, Jean-Pierre Marc-Vergnes |
IEEE Int. Symp. Biomedical Imaging: From Nano to Macro (ISBI ’04), Arlington, Virginia, 2004 |
conference paper |
|||
|
Céline Fouard, Grégoire Malandain, Steffen Prohaska, Malte Westerhoff, Francis Cassot, Christophe Mazel, Didier Asselot, Jean-Pierre Marc-Vergnes |
Reconnaissance des Formes et Intelligence Artificielle (RFIA 2004), Toulouse, France, 2004 |
conference paper |
|||
![]() |
Steffen Prohaska, Hans-Christian Hege, Michael Giehl, Wolfgang Gowin |
14th IAA Humans in Space Symposium, Banff, Alberta, Canada, 2003 |
conference abstract |
||
|
Peter Saparin, Wolfgang Gowin, Alexei Zaikin, Jesper S. Thomsen, Steffen Prohaska, Hans-Christian Hege, Jürgen Kurths |
14th IAA Humans in Space Symposium, Banff, Alberta, Canada, 2003 |
conference abstract |
|||
![]() |
Steffen Prohaska, Hans-Christian Hege, Michael Giehl, Wolfgang Gowin |
2nd European Congress on Achievements in Space Medicine into Health Care Practice and Industry, Berlin-Adlershof, 2003 |
conference abstract talk |
||
|
Peter Saparin, Wolfgang Gowin, Alexei Zaikin, Steffen Prohaska |
2nd European Congress on Achievements in Space Medicine into Health Care Practice and Industry, Berlin-Adlershof, 2003 |
conference abstract |
|||
|
Wolfgang Gowin, Peter Saparin, Steffen Prohaska, Hans-Christian Hege, Stefan Beller, Dieter Felsenberg |
2nd European Congress on Achievements in Space Medicine into Health Care Practice and Industry, Berlin-Adlershof, 2003 |
conference abstract |
|||
|
Alexei Zaikin, Peter Saparin, Steffen Prohaska, Jürgen Kurths, Wolfgang Gowin |
2nd European Congress on Achievements in Space Medicine into Health Care Practice and Industry, Berlin-Adlershof, 2003 |
conference abstract paper |
|||
|
J. S. Thomsen, B. Koller, A. Laib, S. Prohaska, M. Giehl, W. Gowin |
2nd European Congress on Achievements in Space Medicine into Health Care Practice and Industry, Berlin-Adlershof, 2003 |
conference abstract |
|||
|
Hans-Christian Hege, Hartmut Schirmacher, Malte Westerhoff, Hans Lamecker, Steffen Prohaska, Stefan Zachow |
Proceedings of MMVR ’03, Newport Beach, California, 2003 |
conference abstract |
|||
|
Steffen Prohaska |
to be published in Proceedings of the Workshop Towards a Research Network on Imaging and Biomechanics of the Brain Circulation, 2003 |
abstract talk |
|||
![]() |
Steffen Prohaska, Hans-Christian Hege |
Proc. IEEE Visualization ’02, p. 29–36, Boston, Massachusetts, 2002 |
paper talk (5MB) |
||
|
W. Gowin, P. Saparin, S. Prohaska, H.-C. Hege, D. Felsenberg |
Acta Orthop Scand (Suppl 304), 73:26, 2002 | ||||
|
Hans-Christian Hege, Hartmut Schirmacher, Malte Westerhoff, Hans Lamecker, Steffen Prohaska, Stefan Zachow |
Proc. of the Japan Korea Computer Graphics Conference 2002, CDROM, Kanazawa University, Kanazawa City, Ishikawa, Japan, 2002 | conference | |||
|
A. Zaikin, P. Saparin, S. Prohaska, J. Kurths, W. Gowin |
Poster at Dynamic Days Europe, Heidelberg, Germany, 2002 | ||||
![]() |
Steffen Prohaska, Hans-Christian Hege, Michael Giehl, Wolfgang Gowin |
J. Grav. Physiol., 9(1):171–172, 2002 |
abstract talk |
||
|
Steffen Prohaska, Hans-Christian Hege, Michael Giehl, Wolfgang Gowin |
Proceedings of Life in Space for Life on Earth, 2-7 June 2002, Karolinska Institutet, Stockholm, Sweden, p. 75–76, 2002 |
abstract talk |
|||
|
A. Zaikin, P. Saparin, S. Prohaska, J. Kurths, W. Gowin |
Proceedings of Life in Space for Life on Earth, 2-7 June 2002, Karolinska Institutet, Stockholm, Sweden, p. 79–80, 2002 | abstract | |||
|
A. Zaikin, P. Saparin, S. Prohaska, J. Kurths, W. Gowin |
J. Grav. Physiol., 9(1):175–176, 2002 | abstract | |||
|
W. Gowin, P. Saparin, D. Felsenberg, J. Kurths, A. Zaikin, S. Prohaska |
Poster at the IOF World Congress on Osteoporosis, Lisbon, 2002 | ||||
|
Cornelia Kober, Robert Sader, Hans-Florian Zeilhofer, Steffen Prohaska, Stefan Zachow, Peter Deuflhard |
Zuse Institute Berlin, Preprint, ZR-01-31, 2001 |
abstract |














