new file:   CPsubfunctions/CPgetSpotLocalizations.m
  This function calculates multiple spatial features of spot-like objects
  in the cell.

new file:   CPsubfunctions/FilterImageCP3D.m
  This is a support function for ObjByFilter.m generates a pad-array prior
  to image filtering to reduce edge problems.

new file:   CPsubfunctions/ObjByFilter.m
  Detects objects within an 'n' dimensional matrix IMAGE by applying
  an 'n' dimensional matrix FILTER and thresholding according to a given
  OBJTHR value. It outputs the number of objects and optionally a structure
  SEGMENTATIONCC containing the individual objects.

new file:   CPsubfunctions/RescaleImageCP3D.m
  Support function for ObjByFilter. (See help there for more information).
  It generates RESCALEDIMAGE from IMAGE according to given constraints
  LIMQUANT and RESCALETHR. NUMDOWNSAMPLING is a factor used for down-sampling
  to increase speed. It does not affect RESCALEDIMAGE.

new file:   CPsubfunctions/SourceExtractorDeblend.m
  This function is an implementation of the spots de-blending algorithm of
  source extractor Bertin et al. 1996. Usage:
  [OutputCC] = SourceExtractorDeblend(Image,BaseImageCC,FiltImage,Options)
  Where IMAGE is the original image to be segmented. BASEIMAGECC is the
  base segmentation of the image, FILTIMAGE is the LoG Filter image of
  IMAGE (the third output of ObjByFilter). OPTIONS is a structure
  specifying the options for de-blending. (See help for more information).

new file:   CPsubfunctions/fspecialCP3D.m
  FSPECIALCP3D Creates predefined 2-D and 3-D filters.
  H = FSPECIALCP3D(TYPE) creates a two-dimensional or three-dimensional
  filter H of the specified type. (See help for more information)

new file:   CPsubfunctions/getFilteredMediafilenamesCP3D.m
  This function pre-filters image names by a user input string and the channel
  number. Output will be a cell, where rows are different image sets and
  columns are Z-planes of one image set.

new file:   CPsubfunctions/getImageIntensityExtremaCP3D.m
  This function obtains minimum and maximum of an image. Note that minimum and
  maximum are given by the quantile, e.g. minQuantile of 0 is the real minimum
  of the image, while 0.01 would discard the lowest 1%.

new file:   CPsubfunctions/getlastdir.m
  Getlastdir retrieves the last directory or file name from a path string.

new file:   CPsubfunctions/inputVectorsForEvalCP3D.m
  Formats CP input such that it can be used to make a vector;
  Ensures that input does not contain potentially harmful code. (Se help for
  more information).

new file:   CPsubfunctions/obtainRCTS.m
  Support function for CP3D
  For image names provided in the input array File list, this function
  creates a linear index consisting of RowColumnTimepointSite, which can be
  converted back by subMax. The third output indicates the z plane.

new file:   Modules/IdentifySpots2D.m
  This function detects spots as described by Battich et al., 2013. Will
  determine Spots in 2D Image stacks after Laplacian Of Gaussian (LoG)
  enhancing of spots. (See help for more information).

new file:   Modules/LoadSpotCorrection.m
  Loads a single matrix image, which will be used to correct spot detection for
  all image cycles.

new file:   Modules/MeasureChildren.m
  This module pools measurements of children to create measurements for each
  parent. The measurements include mean/std. Additional features, such as higher
  order moments might be included by uncommenting parts of the code.

new file:   Modules/MeasureLocalizationOfSpots.m
  Measures the spot localization features in the cytoplasm of cells as described
  by Battich et al., 2013.

new file:   Modules/RelateForFISH.m
  Assigns relationships: All objects (e.g. speckles) within a parent object
  (e.g. nucleus) become its children. THIS VERSION HAS A BUGFIXED (BY BEREND
  SNIJDER), WHICH IS REQUIRED FOR PROPER PROCESSING OF SPOTS WITH THE MODULES
  OF BATTICH ET AL. 2013

new file:   Modules/ScanSpotThresholds.m
  Determines spots at multiple different thresholds. Can be used to make plate
  wide corrections for spot detection as described by Battich et al., 2013.