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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. Accompanying publication available here...

HdfUtil is a collection of utilities to ease the exchange of HDF5 files between C++, Matlab and Python. The long term goal is integration into the main HDF5 distribution.

... Rhodoferax and Geobacter in anoxic subsurface environments. The ISME journal. Zhuang, K., Ma, E., Lovley, D. R., & Mahadevan, R. (2012). The design of long-term effective uranium bioremediation strategy using a community metabolic model. Biotechnology and Bioengineering.

LAMBDA is a MatLab toolkit that performs multivariate autoregressive first-order data analysis. LAMBDA estimates community interactions using matrix algebra. The target audience is scientists with long-term ecological data.