


Multi-taper coherency,cross-spectrum and individual spectra computed by segmenting two univariate binned point processes into chunks
Usage:
[C,phi,S12,S1,S2,f,zerosp,confC,phierr,Cerr]=coherencysegpb(data1,data2,win,params,segave,fscorr)
Input:
Note units have to be consistent. See chronux.m for more information.
data1 (column vector, binned point process data) -- required
data2 (column vector, binned point process data) -- required
win (length of segments) - required
params: structure with fields tapers, pad, Fs, fpass, err
- optional
tapers (precalculated tapers from dpss, or in the form [NW K] e.g [3 5]) -- optional. If not
specified, use [NW K]=[3 5]
pad (padding factor for the FFT) - optional. Defaults to 0.
e.g. For N = 500, if PAD = 0, we pad the FFT
to 512 points; if PAD = 2, we pad the FFT
to 2048 points, etc.
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.
segave (average over segments for 1, don't average for 0)
fscorr (finite size corrections, 0 (don't use finite size corrections) or 1 (use finite size corrections) - optional
(available only for spikes). Defaults 0.
Output:
C (magnitude of coherency - frequencies x segments if segave=0; dimension frequencies if segave=1)
phi (phase of coherency - frequencies x segments if segave=0; dimension frequencies if segave=1)
S12 (cross spectrum - frequencies x segments if segave=0; dimension frequencies if segave=1)
S1 (spectrum 1 - frequencies x segments if segave=0; dimension frequencies if segave=1)
S2 (spectrum 2 - frequencies x segments if segave=0; dimension
frequencies if segave=1)
f (frequencies)
zerosp (1 for segments where no spikes were found, 0 otherwise)
confC (confidence level for C at 1-p %)
phierr (error bars for phi)
Cerr (Jackknife error bars for C - use only for Jackknife)

0001 function [C,phi,S12,S1,S2,f,zerosp,confC,phierr,Cerr]=coherencysegpb(data1,data2,win,params,segave,fscorr) 0002 % Multi-taper coherency,cross-spectrum and individual spectra computed by segmenting two univariate binned point processes into chunks 0003 % 0004 % Usage: 0005 % [C,phi,S12,S1,S2,f,zerosp,confC,phierr,Cerr]=coherencysegpb(data1,data2,win,params,segave,fscorr) 0006 % Input: 0007 % Note units have to be consistent. See chronux.m for more information. 0008 % data1 (column vector, binned point process data) -- required 0009 % data2 (column vector, binned point process data) -- required 0010 % win (length of segments) - required 0011 % params: structure with fields tapers, pad, Fs, fpass, err 0012 % - optional 0013 % tapers (precalculated tapers from dpss, or in the form [NW K] e.g [3 5]) -- optional. If not 0014 % specified, use [NW K]=[3 5] 0015 % pad (padding factor for the FFT) - optional. Defaults to 0. 0016 % e.g. For N = 500, if PAD = 0, we pad the FFT 0017 % to 512 points; if PAD = 2, we pad the FFT 0018 % to 2048 points, etc. 0019 % Fs (sampling frequency) - optional. Default 1. 0020 % fpass (frequency band to be used in the calculation in the form 0021 % [fmin fmax])- optional. 0022 % Default all frequencies between 0 and Fs/2 0023 % err (error calculation [1 p] - Theoretical error bars; [2 p] - Jackknife error bars 0024 % [0 p] or 0 - no error bars) - optional. Default 0. 0025 % segave (average over segments for 1, don't average for 0) 0026 % fscorr (finite size corrections, 0 (don't use finite size corrections) or 1 (use finite size corrections) - optional 0027 % (available only for spikes). Defaults 0. 0028 % Output: 0029 % C (magnitude of coherency - frequencies x segments if segave=0; dimension frequencies if segave=1) 0030 % phi (phase of coherency - frequencies x segments if segave=0; dimension frequencies if segave=1) 0031 % S12 (cross spectrum - frequencies x segments if segave=0; dimension frequencies if segave=1) 0032 % S1 (spectrum 1 - frequencies x segments if segave=0; dimension frequencies if segave=1) 0033 % S2 (spectrum 2 - frequencies x segments if segave=0; dimension 0034 % frequencies if segave=1) 0035 % f (frequencies) 0036 % zerosp (1 for segments where no spikes were found, 0 otherwise) 0037 % confC (confidence level for C at 1-p %) 0038 % phierr (error bars for phi) 0039 % Cerr (Jackknife error bars for C - use only for Jackknife) 0040 0041 if nargin < 3; error('Need data1 and data2 and size of segment'); end; 0042 if nargin < 4; params=[]; end; 0043 [tapers,pad,Fs,fpass,err,trialave,params]=getparams(params); 0044 if nargin < 5 || isempty(segave); segave=1;end; 0045 if nargin < 6 || isempty(fscorr); fscorr=0; end; 0046 0047 if nargout > 9 && err(1)~=2; 0048 error('Cerr computed only for Jackknife. Correct inputs and run again'); 0049 end; 0050 if nargout > 7 && err(1)==0; 0051 error('When error are desired, err(1) has to be non-zero.'); 0052 end; 0053 0054 [N1,C1,N2,C2]=check_consistency(data1,data2); 0055 N=N1; 0056 dt=1/Fs; % sampling interval 0057 T=N*dt; % length of data in seconds 0058 E=0:win:T-win; % fictitious event triggers 0059 win=[0 win]; % use window length to define left and right limits of windows around triggers 0060 data1=createdatamatpb(data1,E,Fs,win); % segmented data 1 0061 data2=createdatamatpb(data2,E,Fs,win); % segmented data 2 0062 params.trialave=segave; 0063 if err(1)==0; 0064 [C,phi,S12,S1,S2,f,zerosp]=coherencypb(data1,data2,params,fscorr); % compute coherency for segmented data 0065 elseif err(1)==1; 0066 [C,phi,S12,S1,S2,f,zerosp,confC,phierr]=coherencypb(data1,data2,params,fscorr); % compute coherency for segmented data 0067 elseif err(1)==2; 0068 [C,phi,S12,S1,S2,f,zerosp,confC,phierr,Cerr]=coherencypb(data1,data2,params,fscorr); % compute coherency for segmented data 0069 end;