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This package includes a collection of MATLAB files which are designed to:
1. Given a calibration scan of the image of a point emitter with an engineered point spread function (PSF),
2. Perform a phase retrieval algorithm based on maximum likelihood estimation (MLE) of a phase aberration term which is added to the theoretical pupil function of the imaging system.
3. Use the phase-retrieved pupil function to perform single-emitter localization.
SIMBUCA (before called Simonion) is a simulation package that simulates the motion of charged particles under the influence of Electric and/or Magnetic fields.
What makes Simbuca unique is that you can choose to calculate the Coulomb interaction between ions on a Graphics cards which is much faster than calculating this on the conventional CPU (reducing the simulation time from years to days).
Therefore Simbuca has been applied in various projects which required to understand the...
Software for clustering networks as described in "Information-theoretic approach to network modularity" (Phys. Rev. E 71, 046117 (2005); http://link.aps.org/abstract/PRE/v71/e046117).