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Most code is hosted on the ICR Github page. Programs can be downloaded as a .zip, or cloned using git. Feel free to contribute and submit pull requests.
Please contact [email protected] for any assistance.
foci2D - Assess foci in 2D images on a per cell basis (using nuclear marker)
cell-coloc-3D - Measure distribution of a marker per cell, per object (manually segmented)
foci-colocalisation - Measure colocalisation of two types of foci per cell
CalciumAnalysis - Simple analysis of calcium dynamics in 2D images
foci-timelapse - Measure foci dynamics
man-seg-analysis - Analyses objects following manual segmentation (e.g. EM)
coloc-3DT - Measure intensity of one marker in another
relativeTrack - Track one class of objects relative to another