Single-Molecule Localization Microscopy  •  Software Benchmarking

Oracle-BP • MT0.N1.HD

Experimental conditions
  • Structure: MT0, 3 microtubules in the field of view of 6.4 x 6.4 x 1.5 μm
  • Sequence: 2'500 frames
  • Modality: 2D, 3D-Astigmatism, 3D-Double-Helix, 3D-Biplane
  • Noise N1: typical photon counts and background levels for Alexa647 labelled STORM sample
  • Molecule density: 2

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Sample

Activation Ultra-high Density

  • Activation of molecules UHD-1: activations.csv
  • Activation of molecules UHD-2: activations.csv
  • Activation of molecules UHD-3: activations.csv
  • Activation of molecules UHD-4: activations.csv
  • Activation of molecules UHD-5: activations.csv
  • Activation

    feature,value 
    Number of fluos,  11172
    Number of frames,   2500
    Field of view (nm), 6400.00
    Number of activations,  31612
    Average number of photons / activation, 4621.477658
    Density - number of fluorophores per frame, 12.644800
    Density - number of photons per frame, 58437.660687
    Center of power illumination X (nm), 2948.519
    Center of power illumination X (nm), 3473.742
    Distance at half maximum illumination (nm), 3520.000
    Distance at quarter maximum illumination (nm), 4480.000
    Power illumination (W), 400.000
    Framerate, 50.000
    Maximum flux of photons per frame, 7852.507
    Threshold for activation (min photons), 78.525
    Ton,  3.000
    Tdark,  2.500
    Tbleaching,  1.500
    

    Excerpt

    First Frame: 00001.tif

    Random Frame: 01756.tif

    Random Frame: 02113.tif

    Last Frame: 02500.tif

    Time projection

    Average Intensity Projection

    Camera Resolution: 100.0nm/pixel (Original size)

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    High Resolution: 10.0nm/pixel (Enlarge this image)

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    Maximum Intensity Projection

    Camera Resolution: 100.0nm/pixel (Original size)

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    High Resolution: 10.0nm/pixel (Enlarge this image)

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    Report of simulation

    FeatureCountMinMaxMeanStdev
    ID316121.00031612.00015806.500513.270
    X316121.7936398.7642927.19193.241
    Y316120.8376398.5473032.84993.944
    Z31612-667.568634.80858.5517.258
    Frame316121.0002500.0001259.59340.832
    Photons3161278.57210578.7394621.478157.198
    Channel316120.0000.0000.0000.000
    Frame ON316120.0000.0000.0000.000
    Total316121.0001.0001.0000.028
    Background Mean31612325.8821698.056857.24624.731
    Background Stdev3161227.498841.395109.5353.727
    Signal Mean31612264.4003622.0001172.51234.805
    Signal Stdev316122.411965.30896.5133.636
    Signal Peak31612731.0006579.0001692.91651.878
    Sigma X316120.0000.0000.0000.000
    Sigma Y316120.0000.0000.0000.000
    Sigma Z316120.0000.0000.0000.000
    Uncertainty316120.0000.0000.0000.000
    Closest ID316120.00031605.0008138.864367.747
    Closest Distance316122.673442.953334.13510.191
    Closest Count316121.0006.0001.2830.039
    CNR31612-0.47365.6839.0660.325
    SNR31612-0.45327.2915.6790.179
    PSNR316121.46982.74619.7910.621
    Unknown316120.0000.0000.0000.000

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