Robust transmission in the inhibitory Purkinje Cell to Cerebellar Nuclei pathway (Abbasi et al 2017)

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1 . Abbasi S, Hudson AE, Maran SK, Cao Y, Abbasi A, Heck DH, Jaeger D (2017) Robust Transmission of Rate Coding in the Inhibitory Purkinje Cell to Cerebellar Nuclei Pathway in Awake Mice PLOS Computational Biology
2 . Steuber V, Schultheiss NW, Silver RA, De Schutter E, Jaeger D (2011) Determinants of synaptic integration and heterogeneity in rebound firing explored with data-driven models of deep cerebellar nucleus cells. J Comput Neurosci 30:633-58 [PubMed]
3 . Steuber V, Jaeger D (2013) Modeling the generation of output by the cerebellar nuclei. Neural Netw 47:112-9 [PubMed]
4 . Steuber V, De Schutter E, Jaeger D (2004) Passive models of neurons in the deep cerebellar nuclei: the effect of reconstruction errors Neurocomputing 58-60:563-568
5 . Luthman J, Hoebeek FE, Maex R, Davey N, Adams R, De Zeeuw CI, Steuber V (2011) STD-dependent and independent encoding of input irregularity as spike rate in a computational model of a cerebellar nucleus neuron. Cerebellum 10:667-82 [PubMed]
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Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell;
Brain Region(s)/Organism: Cerebellum;
Cell Type(s): Cerebellum deep nucleus neuron;
Channel(s): I h; I T low threshold; I L high threshold; I Na,p; I Na,t; I K,Ca; I K;
Gap Junctions:
Receptor(s): AMPA; NMDA; GabaA;
Transmitter(s): Gaba; Glutamate;
Simulation Environment: GENESIS;
Model Concept(s): Synaptic Integration;
Implementer(s): Jaeger, Dieter [djaeger at];
Search NeuronDB for information about:  GabaA; AMPA; NMDA; I Na,p; I Na,t; I L high threshold; I T low threshold; I K; I h; I K,Ca; Gaba; Glutamate;
function [S,t,f,Serr]=mtspecgramc(data,movingwin,params)
%   Multi-taper time-frequency spectrum - continuous process
%  Usage:
%  [S,t,f,Serr]=mtspecgramc(data,movingwin,params)
%  Input: 
%  Note units have to be consistent. Thus, if movingwin is in seconds, Fs
%  has to be in Hz. see chronux.m for more information.
%        data        (in form samples x channels/trials) -- required
%        movingwin         (in the form [window winstep] i.e length of moving
%                                                  window and step size)
%                                                  Note that units here have
%                                                  to be consistent with
%                                                  units of Fs - required
%        params: structure with fields tapers, pad, Fs, fpass, err, trialave
%        - optional
%            tapers : precalculated tapers from dpss or in the one of the following
%                     forms: 
%                     (1) A numeric vector [TW K] where TW is the
%                         time-bandwidth product and K is the number of
%                         tapers to be used (less than or equal to
%                         2TW-1). 
%                     (2) A numeric vector [W T p] where W is the
%                         bandwidth, T is the duration of the data and p 
%                         is an integer such that 2TW-p tapers are used. In
%                         this form there is no default i.e. to specify
%                         the bandwidth, you have to specify T and p as
%                         well. Note that the units of W and T have to be
%                         consistent: if W is in Hz, T must be in seconds
%                         and vice versa. Note that these units must also
%                         be consistent with the units of params.Fs: W can
%                         be in Hz if and only if params.Fs is in Hz.
%                         The default is to use form 1 with TW=3 and K=5
%                      Note that T has to be equal to movingwin(1).
%             pad            (padding factor for the FFT) - optional (can take values -1,0,1,2...). 
%                     -1 corresponds to no padding, 0 corresponds to padding
%                     to the next highest power of 2 etc.
%                        e.g. For N = 500, if PAD = -1, we do not pad; if PAD = 0, we pad the FFT
%                        to 512 points, if pad=1, we pad to 1024 points etc.
%                        Defaults to 0.
%            Fs   (sampling frequency) - optional. Default 1.
%            fpass    (frequency band to be used in the calculation in the form
%                                    [fmin fmax])- optional. 
%                                    Default all frequencies between 0 and Fs/2
%            err  (error calculation [1 p] - Theoretical error bars; [2 p] - Jackknife error bars
%                                    [0 p] or 0 - no error bars) - optional. Default 0.
%            trialave (average over trials/channels when 1, don't average when 0) - optional. Default 0
%  Output:
%        S       (spectrum in form time x frequency x channels/trials if trialave=0; 
%                in the form time x frequency if trialave=1)
%        t       (times)
%        f       (frequencies)
%        Serr    (error bars) only for err(1)>=1
 if nargin < 2; error('Need data and window parameters'); end;
 if nargin < 3; params=[]; end;
 if length(params.tapers)==3 & movingwin(1)~=params.tapers(2);
     error('Duration of data in params.tapers is inconsistent with movingwin(1), modify params.tapers(2) to proceed')
 if nargout > 3 && err(1)==0; 
 %   Cannot compute error bars with err(1)=0. change params and run again.
     error('When Serr is desired, err(1) has to be non-zero.');
 Nwin=round(Fs*movingwin(1)); % number of samples in window
 Nstep=round(movingwin(2)*Fs); % number of samples to step through
 f=getfgrid(Fs,nfft,fpass); Nf=length(f);
 params.tapers=dpsschk(tapers,Nwin,Fs); % check tapers
 if trialave
     S = zeros(nw,Nf);
     if nargout==4; Serr=zeros(2,nw,Nf); end;
     S = zeros(nw,Nf,Ch);
     if nargout==4; Serr=zeros(2,nw,Nf,Ch); end;
 for n=1:nw;
    if nargout==4
 if nargout==4;Serr=squeeze(Serr);end;