diff toolboxes/FullBNT-1.0.7/KPMstats/cond_indep_fisher_z.m @ 0:e9a9cd732c1e tip

first hg version after svn

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/toolboxes/FullBNT-1.0.7/KPMstats/cond_indep_fisher_z.m	Tue Feb 10 15:05:51 2015 +0000
@@ -0,0 +1,142 @@
+function [CI, r, p] = cond_indep_fisher_z(X, Y, S, C, N, alpha)
+% COND_INDEP_FISHER_Z Test if X indep Y given Z using Fisher's Z test
+% CI = cond_indep_fisher_z(X, Y, S, C, N, alpha)
+%
+% C is the covariance (or correlation) matrix
+% N is the sample size
+% alpha is the significance level (default: 0.05)
+%
+% See p133 of T. Anderson, "An Intro. to Multivariate Statistical Analysis", 1984
+
+if nargin < 6, alpha = 0.05; end
+
+r = partial_corr_coef(C, X, Y, S);
+z = 0.5*log( (1+r)/(1-r) );
+z0 = 0;
+W = sqrt(N - length(S) - 3)*(z-z0); % W ~ N(0,1)
+cutoff = norminv(1 - 0.5*alpha); % P(|W| <= cutoff) = 0.95
+%cutoff = mynorminv(1 - 0.5*alpha); % P(|W| <= cutoff) = 0.95
+if abs(W) < cutoff
+  CI = 1;
+else % reject the null hypothesis that rho = 0
+  CI = 0;
+end
+p = normcdf(W);
+%p = mynormcdf(W);
+
+%%%%%%%%%
+
+function p = normcdf(x,mu,sigma)
+%NORMCDF Normal cumulative distribution function (cdf).
+%   P = NORMCDF(X,MU,SIGMA) computes the normal cdf with mean MU and
+%   standard deviation SIGMA at the values in X.
+%
+%   The size of P is the common size of X, MU and SIGMA. A scalar input  
+%   functions as a constant matrix of the same size as the other inputs.    
+%
+%   Default values for MU and SIGMA are 0 and 1 respectively.
+
+%   References:
+%      [1]  M. Abramowitz and I. A. Stegun, "Handbook of Mathematical
+%      Functions", Government Printing Office, 1964, 26.2.
+
+%   Copyright (c) 1993-98 by The MathWorks, Inc.
+%   $Revision: 1.1.1.1 $  $Date: 2005/04/26 02:29:18 $
+
+if nargin < 3, 
+    sigma = 1;
+end
+
+if nargin < 2;
+    mu = 0;
+end
+
+[errorcode x mu sigma] = distchck(3,x,mu,sigma);
+
+if errorcode > 0
+    error('Requires non-scalar arguments to match in size.');
+end
+
+%   Initialize P to zero.
+p = zeros(size(x));
+
+% Return NaN if SIGMA is not positive.
+k1 = find(sigma <= 0);
+if any(k1)
+    tmp   = NaN;
+    p(k1) = tmp(ones(size(k1))); 
+end
+
+% Express normal CDF in terms of the error function.
+k = find(sigma > 0);
+if any(k)
+    p(k) = 0.5 * erfc( - (x(k) - mu(k)) ./ (sigma(k) * sqrt(2)));
+end
+
+% Make sure that round-off errors never make P greater than 1.
+k2 = find(p > 1);
+if any(k2)
+    p(k2) = ones(size(k2));
+end
+
+%%%%%%%%
+
+function x = norminv(p,mu,sigma);
+%NORMINV Inverse of the normal cumulative distribution function (cdf).
+%   X = NORMINV(P,MU,SIGMA) finds the inverse of the normal cdf with
+%   mean, MU, and standard deviation, SIGMA.
+%
+%   The size of X is the common size of the input arguments. A scalar input  
+%   functions as a constant matrix of the same size as the other inputs.    
+%
+%   Default values for MU and SIGMA are 0 and 1 respectively.
+
+%   References:
+%      [1]  M. Abramowitz and I. A. Stegun, "Handbook of Mathematical
+%      Functions", Government Printing Office, 1964, 7.1.1 and 26.2.2
+
+%   Copyright (c) 1993-98 by The MathWorks, Inc.
+%   $Revision: 1.1.1.1 $  $Date: 2005/04/26 02:29:18 $
+
+if nargin < 3, 
+    sigma = 1;
+end
+
+if nargin < 2;
+    mu = 0;
+end
+
+[errorcode p mu sigma] = distchck(3,p,mu,sigma);
+
+if errorcode > 0
+    error('Requires non-scalar arguments to match in size.');
+end
+
+% Allocate space for x.
+x = zeros(size(p));
+
+% Return NaN if the arguments are outside their respective limits.
+k = find(sigma <= 0 | p < 0 | p > 1);
+if any(k)
+    tmp  = NaN;
+    x(k) = tmp(ones(size(k))); 
+end
+
+% Put in the correct values when P is either 0 or 1.
+k = find(p == 0);
+if any(k)
+    tmp  = Inf;
+    x(k) = -tmp(ones(size(k)));
+end
+
+k = find(p == 1);
+if any(k)
+    tmp  = Inf;
+    x(k) = tmp(ones(size(k))); 
+end
+
+% Compute the inverse function for the intermediate values.
+k = find(p > 0  &  p < 1 & sigma > 0);
+if any(k),
+    x(k) = sqrt(2) * sigma(k) .* erfinv(2 * p(k) - 1) + mu(k);
+end