goEmbedCorr

src/MATLAB/ncdVSvfmd/goEmbedCorr.m

+load('/home/ac/git/rsf/src/MATLAB/ncdVSvfmd/results/qualYes_ncdVSvfmd_[[0.5,8,8]].mat')
+r2 = [];
+
+for i = 1:length(dxx)
+dNCD = [];
+dEmbed = [];
+dMD = [];
+    eyeBucket = dxx{i};
+    for e = 1:size(eyeBucket,1)
+        m = dxx{i}(e,2);
+        n = dxx{i}(e,3);
+        if pData.dx(m) > pData.dx(n)
+            4;
+            tmp = m;
+            m = n;
+            n = tmp;
+        end
+        eyeBucket(e,4) = pData.md(n) - pData.md(m);
+    end
+%     eyeBucket(eyeBucket(:,4)>0,:) = [];
+    if size(eyeBucket,2) < 3
+        continue
+    end
+    mBase = min(eyeBucket(:,2));
+    nBase = min(eyeBucket(:,3));
+    base = min([mBase,nBase]);
+    dmd1 = [];
+    d = [];
+    for j = 1:size(eyeBucket,1)
+        m = eyeBucket(j,2);
+        n = eyeBucket(j,3);
+
+        if pData.dx(m) > pData.dx(n)
+            4;
+            tmp = m;
+            m = n;
+            n = tmp;
+        end
+
+        mi = m - base + 1;
+        ni = n - base + 1;
+        
+        d(mi,ni) = eyeBucket(j,1);
+        d(ni,mi) = d(mi,ni);
+        % m and n indices into pData
+
+        dmd1(mi,ni) = pData.md(n) - pData.md(m);
+        if dmd1(mi,ni) > 0
+            dmd1(mi,ni) = NaN;
+        end
+        if m ~= n && pData.dx(m) == pData.dx(n)
+            % same date pair
+            dmd1(mi,ni) = NaN;        
+        end
+    end
+
+    NDIMS = 3;
+    if all(0==triu(d,1),'all') || size(d,1)<NDIMS
+        continue
+    end
+    [~,Y] = Cluster.SpectralCluster(d,NDIMS);
+    dY = pdist(Y);
+    dY = dY(:);
+    
+    for r = 1:size(d,1)
+        for c = r+1:size(d,2)
+            dNCD = [dNCD;d(r,c)];
+            dMD = [dMD;dmd1(r,c)];
+        end
+    end
+    dY = [dY ; diag(squareform(dY))];
+    dEmbed = [dEmbed ; dY];
+    dNCD = [dNCD ; diag(d)];
+    dMD = [dMD;0*diag(d)];
+    if length(find(abs(dMD)>0)) <1
+        continue
+    end
+%     [r,p] = corr(dMD,dEmbed);
+    [r,p] = corr(dMD,dEmbed,'rows','pairwise');
+    r2 = [r2,r^2];    
+
+end
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