Convert more single compartment cell models of Pospischil et al. 2008 #6
Description
Brief description
The conversion of cell models from Minimal Hodgkin–Huxley type models for different classes of cortical and thalamic neurons, Martin Pospischil, Maria Toledo-Rodriguez, Cyril Monier, Zuzanna Piwkowska, Thierry Bal, Yves Frégnac, Henry Markram and Alain Destexhe, Biological Cybernetics, 2008 requires more work.
See https://github.com/OpenSourceBrain/PospischilEtAl2008
Expected result
Reproducing most of the figures in the paper with models in pure NeuroML2.
Suggested steps
Note: there has been progress converting this model to ChannelML and using it in a neuroConstruct project. However, working on expressing the channels and cells in NeuroML2 and developing LEMS models to run these (and potentially pyNeuroML scripts to generate FI curves) should be more productive in the short term.
- Test existing implementation of channels in NeuroML2 against original mod files. Use (pynml-channelanalysis/pynml-modchananalysis).
- Ensure first cell model (RS cell) behaves same as example from ModelDB. See Get RS cell to match original NEURON code PospischilEtAl2008#3
- Implement other channels in similar fashion (L & T type Ca2+)
- Implement other cell models in NML2 as can be generated from ModelDB example script
- Implement scripts for figures from the paper
Possible extensions
More details to be added...
Knowledge prerequisites
NeuroML2/LEMS
To be learned
Conductance based modelling of cortical cells
Mentor
Contact p.gleeson -at- ucl.ac.uk if you are interested in contributing to this task