AllenInstitute / bmtk

Brain Modeling Toolkit
https://alleninstitute.github.io/bmtk/
BSD 3-Clause "New" or "Revised" License
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Confusing time stamps in TemporalFilter imshow function #370

Open weiwei2027 opened 5 months ago

weiwei2027 commented 5 months ago

Hello, maintainers, thank you for contributing this great work to BMTK. I have some questions that I would like to ask for help. When I refer to the document (https://alleninstitute.github.io/bmtk/tutorial_filter_models.html) to learn how to use the filter model, I find that the timestamps displayed by the TemporalFilter imshow function are confusing. There are two graphs with similar response characteristics but different timestamps, and the one generated by the BMTK code is probably the wrong one because the response characteristics are even less similar to those in the paper.

paper

Durand, S., Iyer, R., Mizuseki, K., Vries, S. de, Mihalas, S., & Reid, R. C. (2016). A Comparison of Visual Response Properties in the Lateral Geniculate Nucleus and Primary Visual Cortex of Awake and Anesthetized Mice. Journal of Neuroscience, 36(48), 12144–12156. https://doi.org/10.1523/JNEUROSCI.1741-16.2016 image

Reproduce code

from bmtk.simulator.filternet.lgnmodel.temporalfilter import TemporalFilterCosineBump
tf = TemporalFilterCosineBump(weights=[30, -20], kpeaks=[50, 100],  delays=[0.0, 0.0])
tf.imshow()

image

Question

Is this a bug, should I use negative values ​​for timestamps?