{"action":"created","issue":{"url":"https://api.github.com/repos/OpenSourceBrain/Contribute/issues/6","labels_url":"https://api.github.com/repos/OpenSourceBrain/Contribute/issues/6/labels{/name}","comments_url":"https://api.github.com/repos/OpenSourceBrain/Contribute/issues/6/comments","events_url":"https://api.github.com/repos/OpenSourceBrain/Contribute/issues/6/events","html_url":"https://github.com/OpenSourceBrain/Contribute/issues/6","id":60352726,"number":6,"title":"Convert more single compartment cell models of Pospischil et al. 2008","user":{"login":"pgleeson","id":1556687,"avatar_url":"https://avatars.githubusercontent.com/u/1556687?v=3","gravatar_id":"","url":"https://api.github.com/users/pgleeson","html_url":"https://github.com/pgleeson","followers_url":"https://api.github.com/users/pgleeson/followers","following_url":"https://api.github.com/users/pgleeson/following{/other_user}","gists_url":"https://api.github.com/users/pgleeson/gists{/gist_id}","starred_url":"https://api.github.com/users/pgleeson/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/pgleeson/subscriptions","organizations_url":"https://api.github.com/users/pgleeson/orgs","repos_url":"https://api.github.com/users/pgleeson/repos","events_url":"https://api.github.com/users/pgleeson/events{/privacy}","received_events_url":"https://api.github.com/users/pgleeson/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/OpenSourceBrain/Contribute/labels/Comp%20neuro%20experience","name":"Comp neuro experience","color":"bfd4f2"},{"url":"https://api.github.com/repos/OpenSourceBrain/Contribute/labels/Difficulty:%20Medium","name":"Difficulty: Medium","color":"fef2c0"},{"url":"https://api.github.com/repos/OpenSourceBrain/Contribute/labels/Duration:%201%20month","name":"Duration: 1 month","color":"fad8c7"}],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":3,"created_at":"2015-03-09T14:40:48Z","updated_at":"2015-07-16T03:39:27Z","closed_at":null,"body":"Brief description\r\n============\r\n\r\nThe conversion of cell models from [Minimal Hodgkin–Huxley type models for different classes of cortical and thalamic neurons](http://www.springerlink.com/content/x38m41w831565813/), Martin Pospischil, Maria Toledo-Rodriguez, Cyril Monier, Zuzanna Piwkowska, Thierry Bal, Yves Frégnac, Henry Markram and Alain Destexhe, Biological Cybernetics, 2008 requires more work.\r\n\r\nSee https://github.com/OpenSourceBrain/PospischilEtAl2008\r\n\r\n\r\nExpected result\r\n============\r\n\r\nReproducing most of the figures in the paper with models in pure NeuroML2.\r\n\r\nSuggested steps\r\n=============\r\n\r\n*Note: there has been progress converting this model to [ChannelML](https://github.com/OpenSourceBrain/PospischilEtAl2008/tree/master/neuroConstruct/cellMechanisms) and using it in a [neuroConstruct project](https://github.com/OpenSourceBrain/PospischilEtAl2008/tree/master/neuroConstruct)*. 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.\r\n\r\n- Test [existing implementation of channels](https://github.com/OpenSourceBrain/PospischilEtAl2008/tree/master/NeuroML2) in NeuroML2 against original mod files. Use ([pynml-channelanalysis/pynml-modchananalysis](http://www.opensourcebrain.org/docs#Converting_To_NeuroML2)).\r\n\r\n- Ensure first cell model ([RS cell](https://github.com/OpenSourceBrain/PospischilEtAl2008/blob/master/NeuroML2/RS_ModelDB.cell.nml)) behaves same as example from ModelDB. See https://github.com/OpenSourceBrain/PospischilEtAl2008/issues/3\r\n\r\n- Implement other channels in similar fashion (L & T type Ca2+)\r\n\r\n- Implement other cell models in NML2 as can be generated from ModelDB example script\r\n\r\n- Implement scripts for figures from the paper\r\n\r\n\r\nPossible extensions\r\n===================\r\n\r\nMore details to be added...\r\n\r\nKnowledge prerequisites\r\n===================\r\n\r\nNeuroML2/LEMS\r\n\r\nTo be learned\r\n===========\r\n\r\nConductance based modelling of cortical cells\r\n\r\n\r\nMentor\r\n======\r\n\r\nContact p.gleeson -at- ucl.ac.uk if you are interested in contributing to this task"},"comment":{"url":"https://api.github.com/repos/OpenSourceBrain/Contribute/issues/comments/121818023","html_url":"https://github.com/OpenSourceBrain/Contribute/issues/6#issuecomment-121818023","issue_url":"https://api.github.com/repos/OpenSourceBrain/Contribute/issues/6","id":121818023,"user":{"login":"JustasB","id":10732358,"avatar_url":"https://avatars.githubusercontent.com/u/10732358?v=3","gravatar_id":"","url":"https://api.github.com/users/JustasB","html_url":"https://github.com/JustasB","followers_url":"https://api.github.com/users/JustasB/followers","following_url":"https://api.github.com/users/JustasB/following{/other_user}","gists_url":"https://api.github.com/users/JustasB/gists{/gist_id}","starred_url":"https://api.github.com/users/JustasB/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/JustasB/subscriptions","organizations_url":"https://api.github.com/users/JustasB/orgs","repos_url":"https://api.github.com/users/JustasB/repos","events_url":"https://api.github.com/users/JustasB/events{/privacy}","received_events_url":"https://api.github.com/users/JustasB/received_events","type":"User","site_admin":false},"created_at":"2015-07-16T03:39:27Z","updated_at":"2015-07-16T03:39:27Z","body":"RS and FS cells implemented here: https://github.com/OpenSourceBrain/PospischilEtAl2008/pull/4"}}