Modelview is not always able to present models in an intuitive way graphically and it does not (according to my understanding) graph synaptic connections/locations.
It may be more use for me to simply draw and re interprit the output of:
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I just want to know if from the prompt (after model loaded) if I can type anything that will give me information about network connection objects (how do I index into them, and print their contents)?
Also I wonder if you know how can I print out the physical location of cell centres (soma centre), and pre/post synapse locations given in carestian coordinates?
I intend to extend and generalize other peoples models of hippocampus, frontal cortex, prefrontal cortex. I am using www.channelpedia.net to try to get information about what mechanisms to insert into which species of neurons. www.neuromorpho.org to get access to appropriate morphologies. I am using brainmaps.org, and scholarpedia.org for some network schematic information, but this is where I have the biggest poverty in free information.
I am using neuroconstruct to check cell validity after importing. But the biggest problem I have is finding network schematic information. I realise that neuroconstruct does graph synaptic locations, but its method of adding synapses is too gross and nonspecific to make specific circuits. Importing models into neuroconstruct is too piecemeal and brings about heaps of other issues. It is too time consuming converting models through single cells in and out of neuroconstruct. Also neuroconstruct is slow and lacks the scripting power of NEURON environment.
Can you recommend any data bases for graphical network schematics? Or do you think it is best to learn to use NEURON well enough to harvest connection information from published models on senselab?
Also I wonder if it will ever be possible to get access to Blue Brain data. Like can you get access to some elementary block of a blue column (rat/cat cortical column) that will run on a serial machine? I find it difficult to navigate the blue brain project website, but I have noticed that some blue brain related tools/models are accessible through senselab.
Also do you think it would be bad practice to try to extend previously published models by replacing abstract inaccurate morphologies with accurate ones from neuromorpho.org? I have noticed that many models are more detailed regarding ion channels than they regarding morphology.