Locate only within specific ROI

Question

Locate only within specific ROI

Closed this issue 7 months ago · 2 comments

Hi,

It would be really useful to have an optional Polygon input to the function trackpy.locate, so that the particles are only localized within a certain ROI. Right now, I am localizing all the particles in the image and then filtering them using shapely and geopandas libraries, but this takes a lot of processing time.

If something like already exists or there is a better alternative, please let me know.

Thanks,

Pablo.

Answer 1 · 2024-04-15T14:13:44.000Z

Have you tried masking the image before processing? That is usually a large speed up. You could also experiment with the brightness threshold and the number of iterations for position refinement; those tend to have a large effect on how much effort is spent on spurious particles. On Apr 15, 2024, at 8:37 AM, Pablo Aurelio Gómez García ***@***.***> wrote: Hi, It would be really useful to have an optional Polygon input to the function trackpy.locate, so that the particles are only localized within a certain ROI. Right now, I am localizing all the particles in the image and then filtering them using shapely and geopandas libraries, but this takes a lot of processing time. If something like already exists or there is a better alternative, please let me know. Thanks, Pablo. — Reply to this email directly, view it on GitHub<#760>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AAWY23NPPJH3I32DI5FV6MLY5PCZXAVCNFSM6AAAAABGHIVCFKVHI2DSMVQWIX3LMV43ASLTON2WKOZSGI2DGNJXGUYDEMA>. You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

Answer 2 · 2024-04-16T07:30:12.000Z

Thanks @nkeim.

I am just masking the image before and multiplying the image stack by the mask when imputing into batch locate:
tp.batch(frames*mask, ...)

It works.