# CRImage a package to classify cells and calculate tumour cellularity

## Documentation for package ‘CRImage’ version 1.0.0

- DESCRIPTION file.
- Overview of user guides and package vignettes; browse directory.

## Help Pages

CRImage-package | CRImage is a package to analyze images and classify cells.
calculateCellularity | Calculation of tumour cellularity
calculateThreshold | Thresholding
classificationAperio | Classification of ScanScopeTX Slides.
classifyCells | A function to classify cells
createClassifier | Construction of a classifier
createTrainingSet | Construction of a training set
CRImage | CRImage is a package to analyze images and classify cells.
determineCellularity | Determination of cellularity
findSlices | calculates the coordinates of the subimages
kernelSmoother | A kernel smoother to classify images
localThreshold | Internal function to do local thresholding.
numberOfNeighbors | Internal function to calculate the number of neighbors of a cell.
paintCells | Coloring of classified cells
parseFinalScan | Internal function to parse CWS index files.
processAperio | Cellularity Calculation of Aperio TX Scanner
segmentCytoplasma | Internal function to segment cell cytoplasma
segmentImage | Segmentation of an image