NeuronCyto is developed for the segmentation of the cellular images captured 
by two channels microscope. This work is accepted by Cytometry Part A. The paper
is available online at: http://dx.doi.org/10.1002/cyto.a.20664. This file contains 
the explanations of the functions/files in NeuronCyto.

When you unzip the files, it means that you agree the License attached in this 
package. This package is only for academic and research use only. The image files
contained in this package is only for the testing of our algorithm. Those images 
were acquired by IMB Singapore. Redistribution of those image is strictly not 
allowed. 

In this package, we preserve the topological dependence in a different way. In our 
original paper, we eliminate the residual region by looking at its common boundary 
of maximum length. In this package, preserving the topological dependence is done 
by a more nature and easier way. The watershed line is evolved dynamically. The 
computation complexity does not depend on the number of cells anymore.
 
The time of analyzing the images is longer than we reported in our original paper, 
because we displayed the boundaries of the nuclei and cells. We also saved the 
preprocessed image, segmentation result and final result into hard disk.

Files description:
Demo.m: A m file to demonstrate how to use the NeuronCyto Package to segment 
multiple cellular images of two channels.
 
function_BackGroundFinder.m: find the background gray level of the images.
 
function_calcenergy.m: calculate the energy term of level set approach.
 
function_CellBodyandNeurite.m: differentiate the neurites from the cell bodies.
 
function_dirac.m: dirac function of level set approach.
 
function_heaviside.m: heaviside function of the level set approach.
 
function_ImageReconst.m: reconstruct the images according to give parameters.
 
function_ImPreProcessing: pre-process the original images.
 
function_NucleusSegment.m: segment the nuclei.
 
function_OpenImage.m: open the image file.
 
function_SeedsWatershedCellSegment: segment the cells based on the topological dependence constraint. 
 
function_timebar.m: time bar to report the progress of analysis.
 
function_VariableInitilize.m: initialize the variables.
 
function_WatershedEvolution.m: evolve the watershed line based on topological dependence.
 
If you have any inquiries about the usage of this package, you may contact the author at:
yuwm@bii.a-star.edu.sg.