Part of our commitment to open science comes in the form of open source software. Over the years, we have produced tools for image analysis and other relevant tasks. Our central CMCB GitHub site collects these software projects.

  1. KiT
  2. SiD
  3. MT-directionality
  4. PERSIST
  5. CellMigration
  6. VolumeFinder

comets KiT (Kinetochore Tracking) is a MATLAB program for tracking kinetochores in microscopy movies in 2D or 3D, and in multiple channels.


No installation is necessary, simply copy the source code to the directory of your choice. Enter that directory within MATLAB (use directory toolbar at top, or 'cd' command) and then enter commands.


Download the source code from our GitHub page.

luttonSID (Spot Intensity Detector) is a MATLAB program for detecting spot intensities in microscopy images in 2D or 3D, in up to four channels.


No installation is necessary, simply copy the source code to the directory of your choice. Enter that directory within MATLAB (use directory toolbar at top, or 'cd' command) and then enter commands.


Download the source code from our GitHub page.

ferritag MT-directionality is a MATLAB script to determine microtubule growth orientation. It uses PlusTipTracker output to determine microtubule growth orientation relative to a user-specified axis of the cell. The script will plot a map of tracks overlaid onto an image of the cell colour-coded for their directionality. It will also generate a histogram with the relative frequency of angles and determine the Kuiper statistics relative to a random distribution.


Download the source code from our GitHub page.

curvature PERSIST allows fast calculation of different measures for the directional persistence of cell migration from tracking data of XY positions over time. This package contains 2 programme files and 2 test datasets that have been used in the original publication (Theisen et al. (2012) Developmental Cell 23:1153-1166).


The programs can be compiled and run on Mac (requires Xcode to be installed) and Linux from the Terminal without any additional software.


Download the source code from our GitHub page.

cellmigration CellMigration is a set of functions to load particle tracks and analyse 2D cell migration in Igor Pro.


Download the source code from our GitHub page.



volfinder VolumeFinder is a set of procedures for volume analysis and spatial statistics of 3D point sets in IgorPro. A detailed walkthrough of the analysis procedure is available bundled with the source code.


Download the source code from our GitHub page.