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OpenSourceBrain / MiglioreEtAl14_OlfactoryBulb3D

3D model of the olfactory bulb (Migliore et al. 2014)
http://www.opensourcebrain.org/projects/miglioreetal14_olfactorybulb3d
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Resolve issue of disconnected axon hillock #7

Closed pgleeson closed 8 years ago

pgleeson commented 9 years ago

Each mitral cell has an axon hillock/initial segment which is not located near the cell soma:

selection_796

3D view

These could potentially be relocated/rotated to the correct location when the cells are converted to NML2.

JustasB commented 8 years ago

@pgleeson Any tips for how to visualize the mitral cell in NEURON ModelView?

pgleeson commented 8 years ago

Best to make a self-contained hoc file which calls mkmitral.py and other files as needed. Try to make this into a script to create one fully set up mitral cells with all params as would be used in the main sim, and this can be used for #4 and for visualising the cell.

JustasB commented 8 years ago

Moved the hillock and initialseg to be next to the soma

http://opensourcebrain.org/projects/d-olfactory-bulb-network/repository/revisions/master/show/NeuroML2/Networks?explorer=https%3A%2F%2Fraw.githubusercontent.com%2FJustasB%2FMig3DTest%2Fmaster%2FNeuroML2%2FNetworks%2FBulb_5MC_240GC.net.nml

pgleeson commented 8 years ago

Great. They're all still oriented the same direction, i.e. not in line with cell body, but this is relatively minor.