livecellreg
Correlation-based registration of 2D & 3D live cell imaging movies using translation of images. It also works quite well for cells with signals that change localization over time within the structure that should be registered - e.g. a signal that is moving within the cell. Only works with timelapse recording - input tif files must have multiple frames as set in ImageJ under Image -> Properties.
Still needs a lot of refactoring. Will be converted into a locally installable package.
For now do the following to use the script
- Check parameters outlined and described at the beginning of the script. If results are not good think about changing parameters - e.g. the frequency of getting a new reference image or for large shifts the max_shift value.
- execute script livecellreg.py with
- choose_folder_manually=True and
- for multi channel movies set the channel on which the registration should be based as reference_channel = "c000X" where X is the channel number (counting starts at 0).
- A popup window will open in which you can choose in which folder you want to register all tiff files.
For questions, please write to me at max.schelski@googlemail.com.