Super-Resolution Microscopy Hub

Simulation MT0.N2.LD

feature,value 
Number of fluos,   8731
Number of frames,  20000
Field of view (nm), 6400.00
Number of activations,  24938
Average number of photons / activation, 497.696521
Density - number of fluorophores per frame, 1.246900
Density - number of photons per frame, 620.577792
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), 350.000
Framerate, 10.000
Maximum flux of photons per frame, 848.687
Threshold for activation (min photons),  8.487
Ton,  3.000
Tdark,  2.500
Tbleaching,  1.500

Parameters

Camera
Photon converter factor or Quantum efficiency (QE)	0.90	e^-/Ph.
Resolution	64	pixels
Pixelsize	100.00	nm
Field of view	6400.00	nm
Optics
Wavelength	660.00	nm
Numerical aperture (NA)	1.49
Autofluorescence
Background level (Gain)	1.00
Background level (Poisson distribution)	10.00
Camera Noise
Distribution: Gaussian (stdev)	74.4
Distribution: Gamma	300.0
Distribution: add poisson	0.0020
Analog Digital Conversion
Electron conversion e^- per ADU	45.00	DN/e^-
Baseline	100.00	DN
Saturation	65535.00	DN
Quantization	16-bit
Computational Parameters
Thickness	1500.00	nm
Frames (interval:1)	From 1 to 20000
Multithreading	Off-1 Thread
Pixelsize to PSF convolution	10.0	nm
Pixelsize for autofluorescence	100.0	nm
Pixelsize of the camera	100.0	nm
File format	TIFF 16-bits

Excerpt

First Frame: 00001.tif

Random Frame: 18710.tif

Random Frame: 15914.tif

Last Frame: 19996.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

Feature	Count	Min	Max	Mean	Stdev
ID	24938	1.000	24938.000	12469.500	455.883
X	24938	2.088	6398.764	2935.322	105.270
Y	24938	3.168	6398.547	3018.019	105.324
Z	24938	-667.568	634.808	57.101	8.235
Frame	24938	1.000	19996.000	10038.922	366.656
Photons	24938	8.515	1143.131	497.697	19.059
Channel	24938	0.000	0.000	0.000	0.000
Frame ON	24938	0.000	0.000	0.000	0.000
Total	24938	1.000	1.000	1.000	0.032
Background Mean	24938	72.299	244.264	161.364	5.171
Background Stdev	24938	6.599	106.113	20.274	0.720
Signal Mean	24938	60.000	584.920	234.040	7.708
Signal Stdev	24938	1.248	176.779	26.614	1.024
Signal Peak	24938	171.000	1302.000	387.666	13.154
Sigma X	24938	0.000	0.000	0.000	0.000
Sigma Y	24938	0.000	0.000	0.000	0.000
Sigma Z	24938	0.000	0.000	0.000	0.000
Uncertainty	24938	0.000	0.000	0.000	0.000
Closest ID	24938	0.000	24928.000	893.584	121.896
Closest Distance	24938	7.560	442.953	429.405	13.726
Closest Count	24938	1.000	3.000	1.028	0.033
CNR	24938	0.481	55.927	12.502	0.471
SNR	24938	0.480	28.851	6.593	0.229
PSNR	24938	2.581	71.301	22.080	0.764
Unknown	24938	0.000	0.000	0.000	0.000

SNR of every molecules: activation-snr.csv