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soft-matter / trackpy

Python particle tracking toolkit
http://soft-matter.github.io/trackpy
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physical meaning of returned parameters #625

Closed Mattyboi123 closed 4 years ago

Mattyboi123 commented 4 years ago

Hello,

I'm really enjoying using this library its incredible useful. I'm wondering what the returned parameters for features mean, specifically signal and size. I'm guessing that the signal is related to how diffuse the intensity is across the feature and that size is the number of particles within the feature? I only ask to be sure before drawing conclusions in data interpretation based on perhaps false assumptions on my part. Apologies for the perhaps obvious nature of the question

nkeim commented 4 years ago

Good question! There's a paragraph near the bottom of the 'locate' documentation that gives some details about the return values. There is also a tutorial on uncertainty estimation which has to do with the "signal" value. However, if there's a clear written description of the eccentricity calculation, it seems we've lost it. See #554 for the discussion.

Please follow up if something's still unclear or you'd like to suggest a change to the documentation!

Mattyboi123 commented 4 years ago

Many thanks, that is clear.

I have another question, perhaps its a feature request in fact? Is there a functionality in trackpy already that returns tiff stacks of each track where the located features are aligned as per the track connectivity?

Best

Matt

On Sat, Aug 1, 2020 at 4:33 PM Nathan Keim notifications@github.com wrote:

Good question! There's a paragraph near the bottom of the 'locate' documentation http://soft-matter.github.io/trackpy/v0.4.2/generated/trackpy.locate.html#trackpy.locate that gives some details about the return values. There is also a tutorial on uncertainty estimation http://soft-matter.github.io/trackpy/v0.4.2/tutorial/uncertainty.html which has to do with the "signal" value. However, if there's a clear written description of the eccentricity calculation, it seems we've lost it. See #554 https://github.com/soft-matter/trackpy/issues/554 for the discussion.

Please follow up if something's still unclear or you'd like to suggest a change to the documentation!

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/soft-matter/trackpy/issues/625#issuecomment-667549108, or unsubscribe https://github.com/notifications/unsubscribe-auth/AM2MFHX42YSBL6IRNH4QAE3R6QYULANCNFSM4PRXJP2Q .

nkeim commented 4 years ago

Hi! That functionality would be helpful but it isn't in trackpy. Feel free to create a new issue with the feature request. If you can also post some sample code, I'm sure there are others out there who would find it useful and suggest improvements!