If you are willing to click on the center of the object of interest in each of the 400 slices, then it is simple to write a macro that with each click, the XY coordinates are saved and the macro progresses to the next slice automatically, and at the end all images are repositioned to center on the XY locations.
Or you could try one of the registration tools such as https://bigwww.epfl.ch/thevenaz/stackreg/ Cheers- Michael Cammer, Sr Research Scientist, DART Microscopy Laboratory NYU Langone Health, 540 First Avenue, New York, NY 10016 Office: RB (formerly Skirball) 4-102 -- call if door is locked (phone near elevators) Office: 646-501-0567 Cell (voice only, not text): 914-309-3270 [email protected] http://nyulmc.org/micros http://microscopynotes.com/ Scheduling the time you want is far more reliable by phone call. Why not provide your phone number? -----Original Message----- From: AR.M. AlHinnawi <[email protected]> Sent: Wednesday, August 6, 2025 3:24 PM To: [email protected] Subject: Registering objects to a rectangular area [EXTERNAL] Dear ImageJ I have a stack of 400 images. They all show the same objects but at different settings, resulting in irregular displacements. The interested objects can be confined in a rectangular area in the first slice (a rectangular area that can be drawn manually). I aim to make similar objects in all remaining slices to fit in the rectangle. For example, I attached the first and last slice. It doesn't seem easy. Please, can you advise? Thank you *Abdel-Razzak Al-Hinnawi, (Full Prof.) (B.Sc., M.Sc., Ph.D. Medical Imaging Sciences & Digital Image Processing & Biomedical Engineering)* *Faculty of Allied Medical Sciences* *ISRA University* *11622, Amman, **JORDAN* *phone: +962 780515199* *e-mail: [email protected] <[email protected]> [email protected] <[email protected]>* -- ImageJ mailing list: https://urldefense.com/v3/__http://imagej.nih.gov/ij/list.html__;!!MXfaZl3l!em9oCMotdAaa5j-SbsTMB-ZWu34WIAd_fy6C67JpL9IgdWpDzuwUu-MP7Yr2sNczfZBafYBV6blHF0a6lRQew8i9qjp6B_U$ ------------------------------------------------------------ This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email. ================================= -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html
