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cortex-lab / Suite2P

Tools for processing 2P recordings
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Add skewness and (other fields) to F...proc.mat file #66

Closed hwpdalgleish closed 6 years ago

hwpdalgleish commented 7 years ago

Hey,

Please add fields to the F...proc.mat file containing images of skewness and any other useful masks so that they can be displayed in RegisterS2P.

Thanks, Henry

carsen-stringer commented 6 years ago

Hey Henry, do you want them in RGB format? I've added them to the proc file now as RGB maps (saved in dat.cl.skewFig, dat.cl.cmpctFig, ....). sorry for the delay on this!

hwpdalgleish commented 6 years ago

Hey Carsen, no worries - I'm sure you and Marius have been busy with the move! I was thinking they could be in a similar format to the dat.mimg and dat.mimg_proc fields. I think these are just double. Is there any reason these other fields need to be RGB?

carsen-stringer commented 6 years ago

I think it's easier to see it as RGB - that's what we're using in the GUI currently. If you just have a single linear colormap, then cells that have low skewness will just be black (you won't see their shape). Would you prefer something like this instead?

hwpdalgleish commented 6 years ago

Keep it as RGB for now, I can always convert it to a double if necessary. As you say - it would suck to lose information, although maybe for the registration it's not completely essential.

carsen-stringer commented 6 years ago

If you want these for more than display purposes I'd recommend using the numerical values from dat.stat. I do some logarithmic scaling with these so the differences are noticeable by eye.