SOFTWARE
Live 3D measurement of telomere diffusion offers an effective method to investigate Chromatin dynamics.
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CCCDO is a MATLAB package using ensemble MSD analysis in order to quantify chromatin dynamics.
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Python code: Trajectory extraction, using localization results of DeepSTORM3D and the raw image sequence in order to reconstruct telomere trajectories, frame-by-frame.
VIPR is a pixel-wise phase retrieval software for pupil plane reconstruction/design, accompanying the paper B. Ferdman, E. Nehme, L. E. Weiss, R. Orange, O. Alalouf, Y. Shechtman. "VIPR: Vectoral implementation of phase retrieval for fast and accuracte microscopic pixel-wise pupil estimation". Optics Express, 28, 7, 10179-10198 (2020)
ANOMALOUS DIFFUSION DATABASE
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Anomalous diffusion database is a set of thousands of single particle trajectories demonstrating different anomalous diffusion models.
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The anomalous diffusion deep learning repository contains diffusion characterization neural network models and analysis functions to utilize them.The database and code accompanies the paper:
N. Granik, L.E. Weiss, E. Nehme, M. Levin, M. Chein, E. Perlson, Y. Roichman, Y. Shechtman, “Single particle diffusion characterization by deep learning“ Biophysical Journal, (2019).
DEEP-STORM
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Deep-STORM is a super resolution single molecule microscopy software accompanying the paper: E. Nehme, L.E. Weiss, T. Michaeli, and Y. Shechtman, "Deep-STORM: Super Resolution Single Molecule Microscopy by Deep Learning", Optica 4, 458-464 (2018).
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Deep-STORM in google colab as part of ZeroCostDL4Mic platform