Software

The following is a list of some of the openly available software that I currently maintain. Links to additional software, including code for publications and collaborations, can be found on my Gitlab or Github profiles. If there is a specific code you are looking for, please feel free to contact me.

Linear Assignment Tracking Toolbox

A MATLAB Toolbox for tracking moving and dividing cells

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BioFormats Image Toolbox

A MATLAB Toolbox implementing the OME BioFormats Image library

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ND2 Reader

MATLAB Toolbox and Python code for implementing the official SDK to read ND2 files (Nikon microscope images)

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CU Boulder Hugo theme

A Hugo theme for the new BioFrontiers Advanced Light Microscopy core website

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CyAn: Cyanobacteria image analysis toolbox

A MATLAB toolbox to analyze microscope images of cyanobacteria

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Monte-Carlo Diffusion Simulation

A MATLAB script for simulating freely diffusing particles constrained within a boundary

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Repo