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LFP forward model scripts etc. #2

Merged
merged 84 commits into from
Apr 19, 2021
Merged

LFP forward model scripts etc. #2

merged 84 commits into from
Apr 19, 2021

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espenhgn
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@espenhgn espenhgn commented Dec 2, 2020

Base setup for LFP predictions. Not yet incorporated into main workflow files.

Closes #3 in due time

@jhnnsnk jhnnsnk marked this pull request as draft December 2, 2020 12:44
@espenhgn espenhgn marked this pull request as ready for review December 2, 2020 17:11
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espenhgn commented Dec 2, 2020

Ok @jhnnsnk ; I think we can call this v0.1 of the LFP simulation setup avaiting the TC population(s). The corresponding workflow should be in place so that a bash script (lfp.sh) is created and can optionally be run. It's only implemented and tested for the mesocircuit model, and I don't see a reason to incorporate it for the microcircuit cases (maybe it will work out of the box - unlikely - but who knows) as we don't have that planned for the manuscript.

The main sim script is run_lfp_simulation.py, while auxiliary files are in core/lfp/. Parameters are derived from those in net_dict and sim_dict.

@espenhgn espenhgn marked this pull request as ready for review April 9, 2021 14:11
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espenhgn commented Apr 9, 2021

@jhnnsnk, this all seems to work as I intended now.

Closes #43, #27 on top of #3

@jhnnsnk jhnnsnk self-requested a review April 19, 2021 09:19
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Thanks for the integration!

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Incorporate LFPs into workflows
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