CYTOO is developing in house and with a number of academic partners powerful algorithms to fully exploit the advantages of cell normalization on adhesive micropatterns.
As these become available, they will be posted here.
Please contact us to request the link and login information to download these ImageJ macros.
Reference Cell ImageJ macro
under finalization, a beta version is available
Description: this macro carries out the following tasks in batch mode:
From a stack of original images taken at a given magnification in 3 wavelengths corresponding to fluorescent micropatterns, dyed
nuclei and phalloidin labelled actin,
images are cropped around each pattern,
nuclei on each cropped pattern are countered and filtered to contain a single nucleus,
cropped images are stacked, realigned on the fluorescent pattern and an arithmetic formula is applied to the stack (for example, an average, a median, or a variance):
A LUT is applied to yield a visual representation of the Reference Cell
Useful links:
- Our webpage describing the Reference Cell concept is here
- Download here our detailed Application Note presenting this
- Check out our Jove video for additional tips and information.
Hypotenuse ImageJ macro
under finalization, a beta version is available
Description: this macro works on L shaped micropatterns and quantifies cell contractility based on the morphology of the major stress fiber spanning the hypotenuse of the L.
Useful links:
- Download here our poster on Cell Contractility Quantification using this macro
SCORe ImageJ macro
under development
Description: automatic calculation of the Single Cell Occupation Rate on a CYTOOchip or in the well of a CYTOOplate enabling efficient seeding optimization.