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| class.neighbours | Class neighbourhood distribution |
| class.neighbours.folder | class.neighbours.folder |
| classify | Classify DAPI |
| classify.folder | Classify DAPI |
| classify.table | Classify DAPI from class image |
| compute.distance2border | Compute distance to border of classes |
| dapimask | Mask DAPI in kernel |
| dapimask.file | Automatic DAPI mask segmentation for files |
| dapimask.folder | automatic DAPI mask segmentation for folder |
| extract.spots | Extract spots using adaptive thresholding and minimum spot intensitiy |
| extract.spots.DHS | Title Extract spots for DHS FISH |
| find.spots.file | Detects spotsfor one file |
| find.spots.folder | Detects spots |
| splitchannel | Split RGB channels |
| splitchannels.file | Split channels into files and extracts size in microns |
| splitchannels.folder | Split RGB images into channels and pixel size information |