GitHub - ModelDBRepository/231862: Mature and young adult-born dentate granule cell models (T2N interface) (Beining et al. 2017)

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Mature and young adult-born dentate granule cell models (T2N interface) (Beining et al. 2017)

modeldb.science/231862

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Name		Name	Last commit message	Last commit date
Latest commit History 2 Commits
Dentate-Granule-Cell-Model		Dentate-Granule-Cell-Model
T2N		T2N
treestoolbox		treestoolbox
readme.html		readme.html
runthisAfterUnzip.m		runthisAfterUnzip.m

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<p>This GC compartmental model accompanies the manuscript 
Beining et al (2017): T2N as a new tool for robust electrophysiological modeling demonstrated for mature and adult-born dentate granule cells. eLife
</p>
<p>These model files are available in Beining's github repositories so check
to see if there are any updates:
</p>
<p><a href="https://github.com/MarcelBeining/Dentate-Granule-Cell-Model">https://github.com/MarcelBeining/Dentate-Granule-Cell-Model</a><p/>
<a href="https://github.com/MarcelBeining/T2N">https://github.com/MarcelBeining/T2N</a><p/>
<a href="https://github.com/cuntzlab/treestoolbox">https://github.com/cuntzlab/treestoolbox</a><p/>
</p>
<p>It runs in NEURON but is written in Matlab with T2N, a new Matlab-NEURON interface. The zip file contains the T2N and the TREES toolbox package and all Matlab scripts and functions that define the model and the simulations that were run to produce the figures of the paper.
</p>
<p>Installation: Unzip the file to the desired location, then start Matlab and go to this location. Run "runthisAfterUnzip.m". All folders and files are added then to your Matlab search path.
</p>
<p>Note: mod files are automatically compiled by T2N.
</p>
<p>Important functions/scripts:
</p><pre>
GC_experiments.m                in the Active GC model folder is the main script that initializes the model, runs the experiments and makes figures
t2n_Tutorial.mlx                in the T2N/Tutorials folder is a Matlab live script that helps to get into T2N. If your Matlab version does not support live scripts(older than Matlab2016a), there is a .m script doing the same simulations with text written as comments
</pre>
<p>Documentation T2N.docx  in the T2N folder is the documentation to T2N explaining all functions/features of T2N
</p>
<p>Scripts for understanding the model:
</p><pre>
GC_exp_tests.m          is similar to "GC_experiments.m" but can be better used for playing with the model
GC_initModel.m          initializes the model after the parameters were defined in the first section of GC_experiments.m
GC_biophys.m            comprises the definition of all the channels and channel densities
GC_spinedensity.m       comprises the definition of spine densitiy scaling factors
</pre>
<p>For further questions, contact me via <a href="mailto:beining@fias.uni-frankfurt.de">beining@fias.uni-frankfurt.de</a>
</p>
<p>20190904 updated to Beining's github repo's</p>
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