{"action":"created","issue":{"url":"https://api.github.com/repos/ReScience/ReScience-submission/issues/19","repository_url":"https://api.github.com/repos/ReScience/ReScience-submission","labels_url":"https://api.github.com/repos/ReScience/ReScience-submission/issues/19/labels{/name}","comments_url":"https://api.github.com/repos/ReScience/ReScience-submission/issues/19/comments","events_url":"https://api.github.com/repos/ReScience/ReScience-submission/issues/19/events","html_url":"https://github.com/ReScience/ReScience-submission/pull/19","id":163206678,"number":19,"title":"Review Request: Vitay","user":{"login":"vitay","id":11293653,"avatar_url":"https://avatars.githubusercontent.com/u/11293653?v=3","gravatar_id":"","url":"https://api.github.com/users/vitay","html_url":"https://github.com/vitay","followers_url":"https://api.github.com/users/vitay/followers","following_url":"https://api.github.com/users/vitay/following{/other_user}","gists_url":"https://api.github.com/users/vitay/gists{/gist_id}","starred_url":"https://api.github.com/users/vitay/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/vitay/subscriptions","organizations_url":"https://api.github.com/users/vitay/orgs","repos_url":"https://api.github.com/users/vitay/repos","events_url":"https://api.github.com/users/vitay/events{/privacy}","received_events_url":"https://api.github.com/users/vitay/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/ReScience/ReScience-submission/labels/01%20-%20Request","name":"01 - Request","color":"207de5"},{"url":"https://api.github.com/repos/ReScience/ReScience-submission/labels/02%20-%20Review","name":"02 - Review","color":"207de5"},{"url":"https://api.github.com/repos/ReScience/ReScience-submission/labels/Life%20Science","name":"Life Science","color":"006b75"},{"url":"https://api.github.com/repos/ReScience/ReScience-submission/labels/Python","name":"Python","color":"fef2c0"}],"state":"open","locked":false,"assignee":{"login":"rougier","id":327203,"avatar_url":"https://avatars.githubusercontent.com/u/327203?v=3","gravatar_id":"","url":"https://api.github.com/users/rougier","html_url":"https://github.com/rougier","followers_url":"https://api.github.com/users/rougier/followers","following_url":"https://api.github.com/users/rougier/following{/other_user}","gists_url":"https://api.github.com/users/rougier/gists{/gist_id}","starred_url":"https://api.github.com/users/rougier/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/rougier/subscriptions","organizations_url":"https://api.github.com/users/rougier/orgs","repos_url":"https://api.github.com/users/rougier/repos","events_url":"https://api.github.com/users/rougier/events{/privacy}","received_events_url":"https://api.github.com/users/rougier/received_events","type":"User","site_admin":false},"assignees":[{"login":"rougier","id":327203,"avatar_url":"https://avatars.githubusercontent.com/u/327203?v=3","gravatar_id":"","url":"https://api.github.com/users/rougier","html_url":"https://github.com/rougier","followers_url":"https://api.github.com/users/rougier/followers","following_url":"https://api.github.com/users/rougier/following{/other_user}","gists_url":"https://api.github.com/users/rougier/gists{/gist_id}","starred_url":"https://api.github.com/users/rougier/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/rougier/subscriptions","organizations_url":"https://api.github.com/users/rougier/orgs","repos_url":"https://api.github.com/users/rougier/repos","events_url":"https://api.github.com/users/rougier/events{/privacy}","received_events_url":"https://api.github.com/users/rougier/received_events","type":"User","site_admin":false}],"milestone":null,"comments":15,"created_at":"2016-06-30T16:20:38Z","updated_at":"2016-08-24T07:46:25Z","closed_at":null,"pull_request":{"url":"https://api.github.com/repos/ReScience/ReScience-submission/pulls/19","html_url":"https://github.com/ReScience/ReScience-submission/pull/19","diff_url":"https://github.com/ReScience/ReScience-submission/pull/19.diff","patch_url":"https://github.com/ReScience/ReScience-submission/pull/19.patch"},"body":"**Julien Vitay**\r\n\r\nDear @ReScience/editors,\r\n\r\nI request a review for the reproduction of the following paper:\r\n\r\n* Laje, R. and Buonomano, D.V. (2013). Robust timing and motor patterns by taming chaos in recurrent neural networks. Nat Neurosci. 16(7) pp 925-33. doi:10.1038/nn.3405\r\n\r\nI believe the original results have been faithfully reproduced as explained in the accompanying article.\r\n\r\nThe repository lives at https://github.com/vitay/ReScience-submission/tree/vitay\r\n\r\nBest regards,\r\nJulien Vitay\r\n\r\n----\r\n\r\n**EDITOR**\r\n\r\n* [x] Editor acknowledgment (@rougier `01 July 2016`)\r\n* [x] Reviewer 1 (@neuronalX `01 July 2016`)\r\n* [x] Reviewer 2 (@piero-le-fou `11 July 2016`)\r\n* [ ] Review 1 decision [accept/reject]\r\n* [ ] Review 2 decision [accept/reject]\r\n* [ ] Editor decision [accept/reject]\r\n"},"comment":{"url":"https://api.github.com/repos/ReScience/ReScience-submission/issues/comments/241983813","html_url":"https://github.com/ReScience/ReScience-submission/pull/19#issuecomment-241983813","issue_url":"https://api.github.com/repos/ReScience/ReScience-submission/issues/19","id":241983813,"user":{"login":"vitay","id":11293653,"avatar_url":"https://avatars.githubusercontent.com/u/11293653?v=3","gravatar_id":"","url":"https://api.github.com/users/vitay","html_url":"https://github.com/vitay","followers_url":"https://api.github.com/users/vitay/followers","following_url":"https://api.github.com/users/vitay/following{/other_user}","gists_url":"https://api.github.com/users/vitay/gists{/gist_id}","starred_url":"https://api.github.com/users/vitay/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/vitay/subscriptions","organizations_url":"https://api.github.com/users/vitay/orgs","repos_url":"https://api.github.com/users/vitay/repos","events_url":"https://api.github.com/users/vitay/events{/privacy}","received_events_url":"https://api.github.com/users/vitay/received_events","type":"User","site_admin":false},"created_at":"2016-08-24T07:46:25Z","updated_at":"2016-08-24T07:46:25Z","body":"Thanks for the comments. I uploaded the manuscript with the missing words.\r\n\r\nFor the perturbation in Fig. 2, I am not fully sure: the original code does not provide the complete script for the figure, it is a GUI where the user can click during the trajectory to perturb the neurons. In the text is only stated:\r\n\r\n> The perturbation was produced by a 10-ms pulse of an additional input unit randomly connected to all units in the RRN with an input amplitude of 0.2, injected at t=300 ms (approximately the time of the ‘h’ and ‘e’ during the ‘chaos’ and ‘neuron’ trajectories respectively).\r\n\r\nSo I think it should be the same perturbation every time, as it is only the weights which are random. I just realize I used two different perturbation neurons (one for each word), while the text implies only one, but that should not make a big difference. Perhaps Laje and Buonomano indeed used a different perturbation every time (with different weights), that would explain the higher variance. The perturbation is rather short (10 ms), so it should not have such a dramatic effect on the trajectories if the perturbation is deterministic.\r\n\r\n"}}
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