Single-Molecule Localization Microscopy  •  Software Benchmarking

3D SMLM Software Challenge

The 3D SMLM challenge is an ongoing competition to assess SMLM software on both simulated and real reference datasets using objective assessment metrics.

The 3D challenge remains continuously open to new submissions from both 2D and 3D SMLM software.

The first round of the challenge was presented in the Special Session at SMLMS 2016.

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Software Density 2D AS DH BP Plateform Open Access Run by Contact
3D-DAOSTORMLD+HDLD+HDLD+HDPython / COpen accessAuthorHazen Babcock
Harvard University (Zhuang group) Cambridge MA, USA
3D-STORM ToolsLD+HDOKOKQt frameworkProprietaryAuthorFabian Hauser
University of Upper Austria Linz, Austria
3D-WTMLD+HDOKOKOKOKStand-aloneAuthorShigeo Watanabe
Hamamatsu Photonics K.K., Japan
ADCGLD+HDOKJuliaOpen accessAuthorNicholas Boyd
University of Berkeley, USA
ALOHAHDOKMatlabAuthorJunhong Min and Kyong Jin
Bio-Imaging and Signal Processing Lab KAIST, Korea
B-recsLD+HDOKOKOKC / ImageJOpen accessAuthorHerve Rouault
Janelia Farm Research Campus HHMI, USA
CEL0-STORMHDOKMatlabLaterAuthorEmmanuel Soubies
INRIA Sophia Antipolis, France
CsplineLD+HDOKOKOKPython / COpen accessAuthorHazen Babcock
Harvard University (Zhuang group) Cambridge MA, USA
DECODEHDHDHDPython / TheanoLater onAuthorArtur Speiser - Srinivas Turagas - Jakob Macke
Janelia Farm, USA
Easy-DHPSFLD+HDOKMatlabOpen AccessAuthorAlex von Diezmann - Camille Bayas - W. E. Moerner
Stanford University Department of Chemistry Stanford, USA
FALCONHDOKOKMatlabOpen accessAuthorJunhong Min and Jong Chul Ye
Bio-Imaging and Signal Processing Lab KAIST, Korea
FIRESTORMLD+HDOKMatlabAuthorThomas Vomhof and Jochen Reichel
Institute of Biophysics Ulm University, Germany
SFP Estimator (FGPA)LD+HDOKStand-alone (QT C++)Open-accessAuthorManfred Kirchgessner and Frederik Gruell
Heidelberg University, Germany
LEAPHDOKPythonOpen accessAuthorHanjie Pan
EPFL Lausanne, Swiss
L1HLD+HDOKPythonOpen accessAuthorHazen Babcock
Harvard University Cambridge MA, USA
LocalizerLDOKOKIgorOpen accessExpertDepartment of Chemistry University of Leuven, Belgium
MaLiangLDOKImageJOpen accessAuthorZhen-li Huang and Yujie Wang
Wuhan Laboratory for Optoelectronics HUST Wuhan, China
MIAToolLDOKOKOKOKJavaOpen accessAuthorR. Velmurugan A. V. Abraham and R. J. Ober
Texas A&M University College Station Texas, USA
mlePALMLD+HDOKOKMatlabAuthorHendrik Deschout
Laboratory of Nanoscale Biology EPFL, Swiss
OctaneLD+HDOKImageJOpen accessExpertUniversity of Connecticut Health Center, USA
PALMERHDOKImageJOpen accessAuthorZhen-li Huang and Yi-na Wang
Wuhan Laboratory for Optoelectronics HUST Wuhan, China
PeakFitLD+HDOKImageJOpen accessAuthorAlex Herbert
Genome Damage and Stability Centre University of Sussex, UK
PeakSelectorLD+HDOKIDLExpert
pSMLM-3DLD+HDOKOKImageJOpen accessAuthorKoen Martens and Johannes Hohlbein
Laboratory of Biophysics Wageningen University, NL
QC-STORMLD+HDOKOKOKImageJLaterAuthorLuchang Li
Wuhan National Laboratory, China
QuickPALMLDOKOKImageJOpen accessAuthorRicardo Henriques
Institut Pasteur Paris, France
RainSTORMLD+HDOKOKOKMatlabOpen accessAuthorG. Tamas and J. Sinko
University of Cambridge UK & University of Szeged, Hungary
RapidSTORMLD+HDOKOKStand-aloneOpen accessAuthorSteve Wolter Markus Sauer
Biotechnologie and Biophysik University of Wurzburg, Germany
SMAPLD+HDOKOKOKOKMatlabOpen accessAuthorYiming Li and Jonas Ries
EMBL Heidelberg, Germany
SMfitLD+HDOKJulia / PythonAuthorHayato Ikoma
Electrical Engineering Department Stanford University, USA
SMolPhotLD+HDOKOKPython / COpen accessAuthorA. Loot - A. Valdmann - M. Eltermann - M. Kree - M. Pars
University of Tartu Institute of Physics, Estonia
SOLAR_STORMLD+HDOKMatlab / CAuthorYoon J. Jung - Anthony Barsic - Rafael Pietsun - Nikta Fakhri
Fakri Lab MIT, USA
STORMChaserLD+HDOKMatlabAuthorAnna Archetti
Institute of Physics EPFL, Swiss
ThunderSTORMLD+HDOKOKOKImageJOpen accessAuthorMartin Ovesny Guy Hagen and Pavel Krizek
Charles University Prague, Czech
TVSTORMLD+HDOKOKMatlabAuthorJiaqing Huang
The Ohio State University Columbus OH, USA
WaveTracerLD+HDOKOKMetamorphCommercialAuthorAdel Kechkar and Jean-Baptiste Sibarita
University of Bordeaux and Institute for Neuroscience, France
WTMLD+HDOKStand-aloneAuthorShigeo Watanabe
Hamamatsu Photonics K.K., Japan

© 2018 Biomedical Imaging Group, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
Last update: 30 Nov 2018