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Record calcium concentration new #804

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merged 21 commits into from
Jul 8, 2024

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katduecker
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Sorry to have opened a new PR, I had some merging conflicts. This one supersedes #792

We decided that the absolute values of the calcium concentration may not be interpretable, which is not a problem, but probably something we want to state in publications that use the feature!

@katduecker katduecker changed the title New record calc Record calcium concentration new Jun 25, 2024
@kmilo9999
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@katduecker you probably need to rebase this branch in order to run successfully the checklist.

@katduecker
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Thanks!

@ntolley
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ntolley commented Jul 1, 2024

Looks like this is the offending line:
image

Just to double check, does the soma actually have calcium channels? Or should this be changed to one of the dendrites.

@katduecker
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Yep, somehow cell_response.ca was in the wrong line. Thanks for pointing me to it :)

@@ -200,7 +200,7 @@ API
:meth:`~hnn_core.extracellular.ExtracellularArray.plot_lfp`, by
`Steven Brandt`_ and `Ryan Thorpe`_ in :gh:`517`.

- Recorded voltages/currents from the soma, as well all sections, are enabled by
- Recorded voltages/currents from the soma, as well as all sections, are enabled by
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much appreciated 😉

doc/whats_new.rst Outdated Show resolved Hide resolved
hnn_core/cell.py Outdated Show resolved Hide resolved
@ntolley
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ntolley commented Jul 8, 2024

Great work @katduecker!! We should definitely put together an example showing off how the calcium_model() and the jones_2009_model() differ using this feature.

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ntolley commented Jul 8, 2024

Also can you update the title to have the [MRG] tag and get rid of "new"?

@ntolley ntolley merged commit 30e91f2 into jonescompneurolab:master Jul 8, 2024
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3 participants