Nincs leírás

Krista Perks ffe34c35ec gin commit from Markov 4 éve
20050727_3224 ffe34c35ec gin commit from Markov 4 éve
20050728_3404_latency1 ffe34c35ec gin commit from Markov 4 éve
20050728_3404_latency2 ffe34c35ec gin commit from Markov 4 éve
20050808_3629_latency1 ffe34c35ec gin commit from Markov 4 éve
20050808_3629_latency1b ffe34c35ec gin commit from Markov 4 éve
20050808_3629_latency2 ffe34c35ec gin commit from Markov 4 éve
20050808_3629_latency2b ffe34c35ec gin commit from Markov 4 éve
20050811_3221 ffe34c35ec gin commit from Markov 4 éve
20050818_2874 ffe34c35ec gin commit from Markov 4 éve
20050819_2601 ffe34c35ec gin commit from Markov 4 éve
20050820_2960_trial1 ffe34c35ec gin commit from Markov 4 éve
20050824_2627_control ffe34c35ec gin commit from Markov 4 éve
20050824_2627_trial1 ffe34c35ec gin commit from Markov 4 éve
20060626_2815 ffe34c35ec gin commit from Markov 4 éve
20060627_2673 ffe34c35ec gin commit from Markov 4 éve
20060708_3004 ffe34c35ec gin commit from Markov 4 éve
20060710_2767 ffe34c35ec gin commit from Markov 4 éve
20060710_3196 ffe34c35ec gin commit from Markov 4 éve
20060804_2107 ffe34c35ec gin commit from Markov 4 éve
20060812_2921 ffe34c35ec gin commit from Markov 4 éve
20060812_3066 ffe34c35ec gin commit from Markov 4 éve
20060812_3205 ffe34c35ec gin commit from Markov 4 éve
20060816_3893 ffe34c35ec gin commit from Markov 4 éve
20070718_598_coupled ffe34c35ec gin commit from Markov 4 éve
20070719_91_coupled ffe34c35ec gin commit from Markov 4 éve
20070720_3352 ffe34c35ec gin commit from Markov 4 éve
20070723_287 ffe34c35ec gin commit from Markov 4 éve
20070723_311 ffe34c35ec gin commit from Markov 4 éve
20070723_339 ffe34c35ec gin commit from Markov 4 éve
20070723_415 ffe34c35ec gin commit from Markov 4 éve
20070727_3798 ffe34c35ec gin commit from Markov 4 éve
20070727_3798_control ffe34c35ec gin commit from Markov 4 éve
20070801_3838 ffe34c35ec gin commit from Markov 4 éve
20070801_3838_control ffe34c35ec gin commit from Markov 4 éve
20070808_3727 ffe34c35ec gin commit from Markov 4 éve
20070816_3375 ffe34c35ec gin commit from Markov 4 éve
20070816_3375b ffe34c35ec gin commit from Markov 4 éve
20070816_3509 ffe34c35ec gin commit from Markov 4 éve
20071025_3335 ffe34c35ec gin commit from Markov 4 éve
20071025_3335_control ffe34c35ec gin commit from Markov 4 éve
20071026_3108 ffe34c35ec gin commit from Markov 4 éve
20071026_3108_control ffe34c35ec gin commit from Markov 4 éve
20170810_expt4_vent ffe34c35ec gin commit from Markov 4 éve
20170810_expt5_vent ffe34c35ec gin commit from Markov 4 éve
20170815_expt10_swim ffe34c35ec gin commit from Markov 4 éve
20170815_expt8_vent ffe34c35ec gin commit from Markov 4 éve
20170815_expt9_vent ffe34c35ec gin commit from Markov 4 éve
20180124_expt1_swim ffe34c35ec gin commit from Markov 4 éve
20180124_expt2_swim ffe34c35ec gin commit from Markov 4 éve
20180407_freerun2 ffe34c35ec gin commit from Markov 4 éve
20180407_freerun3 ffe34c35ec gin commit from Markov 4 éve
20180407_freerun4 ffe34c35ec gin commit from Markov 4 éve
20180407_freerun5 ffe34c35ec gin commit from Markov 4 éve
DataScripts ffe34c35ec gin commit from Markov 4 éve
LICENSE efb198beea gin commit from Markov 4 éve
README.md 63ae2d0c97 Update 'README.md' 4 éve
datacite.yml e9a4a794e6 Update 'datacite.yml' 4 éve

README.md

MON_PredictiveCancellation

Downloading the data

Using gin

Create an account on gin and download the gin client as described here. On your computer, log in using

gin login

Clone the repository using:

gin get kperks/PredictiveCancellation_CerebellumLikeMON

Large data files will not be downloaded automatically. To get them, use

gin get-content <filename>

Downloaded large files will be locked (read-only). You must unlock the files using

gin unlock <filename>

To remove the contents of a large file again, use

gin lock <filename>
gin remove-content <filename>

See here for detailed information on how to use gin.

Using git annex

Make sure git and git-annex are installed on your computer. Create an account on gin and upload your public SSH key to your gin profile. Then clone the repository using

git clone git@gin.g-node.org:/kperks/PredictiveCancellation_CerebellumLikeMON.git

Large data files will not be downloaded automatically. To get them, use

git annex get <filename>

Downloaded large files will be locked (read-only). You must unlock the files using

git annex unlock <filename>

To remove the contents of a large file again, use

git annex --force lock <filename>
git annex drop <filename>

See the git annex documentation for details.

Using the web browser

Download the latest release as a zip file by clicking on Releases on the main page at https://web.gin.g-node.org/INM6/multielectrode_grasp. This zip file will contain all small (text) files only, while large data files will not be downloaded automatically and an empty placeholder will be put in their place. To get the full content of such a large file , download these files individually as needed from the web interface by clicking on them in the repository browser.

Repository structure

Directory datasets

Data associated with each cell/experiment is located in its own folder titled by date_cellID_[other].

Directory code

The .ipynb and .csv files in the DataScripts directory contain all functions and data needed to reproduce the results reported in the manuscript and the raw visualization of those results (which were then organized into the final manuscript figures using Corel). These scripts pull data from individual data files (.smr or .npy) contained in the rest of the directory tree (titled by date_cellID_[other]).

-'Analysis_responses.ipynb' analyzes the spiking responses from individual cells (using information specific to each experiment/cell collected contained in 'DataMat.csv') and stores the results in 'MetaData.csv'

-ManuscriptAnalysis.ipynb' queries data stored in 'MetaData.csv' and analyzes the data as reported in the Results of the manuscript. This file also contains all of the scritps used to create the figures in the manuscript associated with those results.

For some cells, spike times were detected by peak finding in Spike2 and are stored in the .smr file. For some cells, SpykingCircus (version 0.8.3; Written by P.Yger and O.Marre) was used to detect spikes and the times are stored in spikes.npy. The DataScripts folder contains the probe file and params file used for this sorting.

datacite.yml
Title "A cerebellum-like circuit in the lateral line system of fish cancels mechanosensory input associated with its own movements."
Authors Perks,Krista
Krotinger,Anna
Bodznick,David
Description Data (raw .smr from Spike2) and associated analyses scripts (.ipynb for python3 jupyter notebook) for the published manuscript (Perks et al. 2020). Published in the Journal of Experimental Biology.
License Creative Commons CC0 1.0 Public Domain Dedication (https://creativecommons.org/publicdomain/zero/1.0/)
References A cerebellum-like circuit in the lateral line system of fish cancels mechanosensory input associated with its own movements [10.1242/jeb.204438] (IsSupplementTo)
Funding
Keywords Predictive Cancellation
Cerebellum-like
Reafference
Sensory system
Elasmobranch
Mechanosensory lateral line
Resource Type Dataset