Revisions

#	Date	Author	Comment
b3578df5	31 Jul 2018 13:01	Padraig Gleeson (admin)	Tweaks
9144b225	31 Jul 2018 11:56	Jessica Dafflon	Python: Interlaminar Code for interlaminar simulation For testing purpose the flag -degub can be passed. This will overwrite the simulation pickle with the simulation obtained from matlab
1e303f0b	31 Jul 2018 10:45	Jessica Dafflon	Python: Intralaminar simulation Only the intralaminar simualtion requires the downsampling of the data. Therefore, this part of the code was moved outside of the main calculate_periodogram function Rename function down_sample_periodogram to calculate_periodogram.
9c482e49	31 Jul 2018 10:44	Jessica Dafflon	Python: Intralaminar simulation Move periodogram function to helper_functions.py Fix small generalisation issues
6c8cc006	30 Jul 2018 20:54	Jessica Dafflon	Python: Use matrix to calculate rate Calculate rate for both L2/3 and L5/6 layers
311bfb3a	30 Jul 2018 13:26	Jessica Dafflon	Python: Intralaminar Analysis pass transient as argument to the intralaminar_analysis function
960753ed	30 Jul 2018 12:06	Jessica Dafflon	Python: Plot results only when analysis is concluded
0d2f2580	30 Jul 2018 11:58	Jessica Dafflon	gitingore: gitignore the results from the simulations
1b1e8201	30 Jul 2018 11:43	Jessica Dafflon	Python: Major refactoring Rename the main file to Mejias-2016. This script calls all other necessary functions. For now there are two possible analysis options: intralaminar: plot Fig2 from the orignal paper debug_neuroML: save one run of the simulation to be compared with the...
1b04651b	27 Jul 2018 15:24	Padraig Gleeson (admin)	More nml2
a041972e	27 Jul 2018 15:11	Jessica Dafflon	Python: Correct the slashes and minor corrections on the way the data is saved
5b922bda	27 Jul 2018 14:55	Jessica Dafflon	Python: Save the excitatory and inhibitory traces
7232fe86	27 Jul 2018 14:35	Padraig Gleeson (admin)	Adding noise
c253881f	27 Jul 2018 13:50	Padraig Gleeson (admin)	Initial nml2 version
b1f5a14d	27 Jul 2018 10:27	Jessica Dafflon	Python: Improve bash script Correct Figure label Improve main calling of the bash script
709aa2c8	26 Jul 2018 11:35	Jessica Dafflon	Python: Remove initial python file used for testing the similarities between matlab and python
8cb83f75	26 Jul 2018 11:35	Jessica Dafflon	Python: Minor corrections Generalise the intralaminar_simulation code Call run_intralaminar.sh to run the simulation and plot Figure 2
a20d96c0	26 Jul 2018 11:06	Jessica Dafflon	Python: No longer load matfiles Include label on the plot
c709a611	26 Jul 2018 10:57	Jessica Dafflon	Python: Translate Matlab code For test purposes import the random values generated by matlab Plot: Plot the Python generated as well as Matlab generated code
2f3091c6	26 Jul 2018 08:53	Jessica Dafflon	Python: Improve similarity between Python and Matlab Discard the first time points of the simulation Implement the same smoothing function as matlab
27309c9a	24 Jul 2018 17:28	Jessica Dafflon	Python: Separete simulate and plt code
533238bc	24 Jul 2018 11:00	Jessica Dafflon	Python: iterate over different currents and runs Iterate over 4 differet external input currents Calculate the rate over 10 runs and take the mean rate during the experiment The option -nogui can now be passed to the script
d6ac065b	24 Jul 2018 08:25	Jessica Dafflon	Python: Perform analysis on the calculated rate and smooth it
740b24dc	23 Jul 2018 17:54	Jessica Dafflon	Python: Transform periodogram analysis into a function
35c16c65	23 Jul 2018 17:35	Jessica Dafflon	Python: Reduce periodogram sampling

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