Request for Reviewing the parameters

[ati ahmadi]

I’m using Oufti to process time-lapse images of rod-shaped bacteria that I’ve collected by fluorescence and phase microscopy. I’m preparing a user guide covering several image processing tools.  I would like to share the pipeline I use to segment my images. I would be grateful if you could comment on the pipeline (please find the attached) so that I can be sure that I have the most accurate parameters of your tool to segment the images and track the objects.  
P.S. : I want to mention that as an input I use Ilastik output, since I think this way, the segmentation is more accurate but please let me know if you don’t think so.