catalystneuro / dombeck-lab-to-nwb

NWB Conversion project for the Dombeck lab at Northwestern University.
MIT License
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Add fiber photometry #7

Closed weiglszonja closed 3 months ago

weiglszonja commented 3 months ago

Add raw fiber photometry data from the binned .mat files. The binned .mat files are a result of concatenation of PicoScope data after separating fluorescence due to 470 nm vs 405 nm illumination and re-binned to 100 Hz (see #5):

Fluorescence collected during 405-nm or 470-nm illumination (20 time bins for each pulse of 405-nm or 470-nm excitation) was separated using the binary output from the waveform generator. For each transition period between illumination sources, five time bins were excluded to remove transition times. Traces were then re-binned to 100 Hz by averaging every 40 time bins for velocity and every 40 time bins for 405-nm and 470-nm fluores- cence traces (but including only 15 of 40 bins for each source: excluding 20 bins when the alternate source was on and five transition bins).

Using ndx-photometry (https://github.com/catalystneuro/ndx-photometry/pull/7)

The updated diagram:

azcorra2023_uml

weiglszonja commented 3 months ago

Stub is at 20200205-0001.nwb

weiglszonja commented 3 months ago

Yeah I think the metadata is probably going to change, looking at the notes for today. I will have to ask these because I just couldn't find it in the article.