Hi,
I am running motion correction on movies collected at low magnification and with a high exposure time of approximately 80 seconds. I am observing the following results. Does anyone know what might be causing this?
@Ravi.Thakkar369 Please can you
- provide additional details that may explain the apparent discrepancy between the title of this topic and the content of your post
- email us the job reports of job J1 and J2
I unfortunately do not have credentials to access the shared files. @Ravi.Thakkar369 I sent you a private message that lists an email address where you can sent the files.
Oh, I have sent you an email. Thanks 
Hi @Ravi.Thakkar369, we’re still investigating this issue. One thing I’ve noticed from the image you posted above is that there seems to be a very large number of patches. Could you let me know what pixel size you entered in the Import Movies job, and if that agrees with the pixel size given to you by the microscope operator?
Its 4.9 A. Movies taken as lower magnification to include entire cells.
Try forcing the number of knots to be much lower. Maybe 11x7 or 9x5 (looks like K3 image from screenshot)?
Changing knots may help, but it will not change the number of patches, so I’m not sure it will help if that is the issue. You may need to use Full Frame Motion Correction (or set knots to 1 in each dimension, which essentially does the same thing). You’ll lose the benefit of Patch Motion Correction in this case, unfortunately.
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Yeah, 1x1 is an option too.