Here is a list of all files with brief descriptions:

alternaria.cpp [code]	Fit an Alternaria_model, PSF_model, and Imaging_model to 3D microscopic image data of Alternaria
alternaria_gen.cpp [code]	Generates an Alternaria_model, PSF_model, and Imaging_model and corresponding 3D microscopic image data from the models
alternaria_model.cpp [code]	Model of Alternaria composed of Structure elements
alternaria_model.h [code]	Model of Alternaria composed of Structure elements
alternaria_moves.cpp [code]	MCMC sampler moves that propose changes to an Alternaria_model
alternaria_moves.h [code]	MCMC sampler moves that propose changes to an Alternaria_model
alternaria_viewer.cpp [code]	View an Alternaria_model in an OpenGL environment
density.cpp [code]	Parameters for various probability density functions
density.h [code]	Parameters for various probability density functions
hypha.cpp [code]	Alternaria Apical_hypha, Lateral_hypha, Apical_hypha_density, and Lateral_hypha_density classes
hypha.h [code]	Alternaria Apical_hypha, Lateral_hypha, Apical_hypha_density, and Lateral_hypha_density classes
imaging_model.cpp [code]	Imaging model and density parameters for an imaging system used to capture Alternaria data
imaging_model.h [code]	Imaging model and density parameters for an imaging system used to capture Alternaria data
imaging_moves.cpp [code]	MCMC sampler moves that propose changes to an Imaging_model
imaging_moves.h [code]	MCMC sampler moves that propose changes to an Imaging_model
printable.cpp [code]	Abstract class to print objects and their members
printable.h [code]	Abstract class to print objects and their members
psf_model.cpp [code]	Point spread function model and density parameters for a microscope
psf_model.h [code]	Point spread function model and density parameters for a microscope
psf_moves.cpp [code]	MCMC sampler moves that propose changes to a PSF_model
psf_moves.h [code]	MCMC sampler moves that propose changes to a PSF_model
sampler.cpp [code]	MCMC sampler for fitting an Alternaria_model, PSF_model, and Imaging_model to a 3D image data set of Alternaria
sampler.h [code]	MCMC sampler for fitting an Alternaria_model, PSF_model, and Imaging_model to a 3D image data set of Alternaria
spore.cpp [code]	Alternaria Spore and Spore_density classes
spore.h [code]	Alternaria Spore and Spore_density classes
structure.cpp [code]	Alternaria Structure and Structure_density abstract classes
structure.h [code]	Alternaria Structure and Structure_density abstract classes