diff toolboxes/FullBNT-1.0.7/bnt/examples/limids/amnio.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/bnt/examples/limids/amnio.m	Tue Feb 10 15:05:51 2015 +0000
@@ -0,0 +1,135 @@
+
+clear all
+B0 = 1; Rtriple = 2; Damnio = 3;
+B1 = 4; Ramnio = 5; Dabort = 6; 
+B2 = 7; U = 8;
+
+N = 8;
+dag = zeros(N,N);
+dag(B0, [Rtriple B1 Ramnio]) = 1;
+dag(Rtriple, [Damnio Dabort]) = 1;
+dag(Damnio, [B1 Ramnio]) = 1;
+dag(B1, B2) = 1;
+dag(Ramnio, [Dabort U]) = 1;
+dag(Dabort, B2) = 1;
+dag(B2, U) = 1;
+
+
+
+ns = zeros(1,N);
+ns(B0) = 2;
+ns(B1) = 3;
+ns(B2) = 4;
+ns(Rtriple) = 2;
+ns(Ramnio) = 3;
+ns(Damnio) = 2;
+ns(Dabort) = 2;
+ns(U) = 1;
+
+limid = mk_limid(dag, ns, 'chance', [B0 B1 B2], ...
+		 'decision', [Damnio Dabort], 'utility', [U]);
+
+% states of nature
+healthy = 1; downs = 2; miscarry = 3; aborted = 4;
+% test results
+pos = 1; neg = 2; unk = 3;
+% actions
+yes = 1; no = 2;
+
+% Prior probability baby has downs syndrome
+tbl = zeros(2,1);
+p = 1/1000; % from www.downs-syndrome.org.uk figure
+p = 24/10000; % www-personal.umich.edu/~bobwolfe/560/review/Downs.pdf (for women agen 35-40)
+tbl(healthy) = 1-p;
+tbl(downs) = p;
+limid.CPD{B0} = tabular_CPD(limid, B0, tbl);
+
+% Reliability of triple screen test
+% Unreliable sensor
+% B0 -> Rtriple
+tbl = zeros(2,2); % Rtriple = pos, neg
+p = 0.5;  % high false positive rate (guess)
+tbl(healthy, :) = [p 1-p];
+p = 0.6; % low detection rate (march of dimes figure)
+tbl(downs, :) = [p 1-p]; 
+limid.CPD{Rtriple} = tabular_CPD(limid, Rtriple, tbl);
+
+limid.CPD{Damnio} = tabular_decision_node(limid, Damnio);
+
+% Effect of amnio on baby  B0,Damnio -> B1
+ % 1/200 risk of miscarry 
+p = 1/200; % (march of dimes figure)
+tbl = zeros(2, 2, 3); % B1 = healthy, downs, miscarry
+tbl(healthy, no, :) =  [1     0     0];
+tbl(downs, no, :) =    [0     1     0];
+tbl(healthy, yes, :) = [1-p     0   p];
+tbl(downs, yes, :) =   [0     1-p   p];
+limid.CPD{B1} = tabular_CPD(limid, B1, tbl);
+
+% Reliability of amnio  B0, Damnio -> Ramnio
+% Perfect sensor
+tbl = zeros(2,2,3); % Ramnio = pos, neg, unk
+tbl(:, no, :) =        repmat([0 0 1], 2 ,1);
+tbl(healthy, yes, :) = [0 1 0]; 
+tbl(downs, yes, :) =   [1 0 0]; 
+limid.CPD{Ramnio} = tabular_CPD(limid, Ramnio, tbl);
+
+limid.CPD{Dabort} = tabular_decision_node(limid, Dabort);
+
+% Effect of abortion on baby  B1, Dabort -> B2
+tbl = zeros(3, 2, 4); % B2 = healthy, downs, miscarry, aborted
+tbl(:, yes, :) =       repmat([0 0 0 1], 3, 1);
+tbl(healthy, no, :) =  [1 0 0 0];
+tbl(downs, no, :) =    [0 1 0 0];
+tbl(miscarry, no, :) = [0 0 1 0];
+limid.CPD{B2} = tabular_CPD(limid, B2, tbl);
+
+% Utility U(Ramnio, B2)
+tbl = zeros(3, 4);
+tbl(:, healthy) = 5000;
+tbl(:, downs) = -50000;
+tbl(:, miscarry) = -1000;
+tbl(:, aborted) = -1000;
+
+if 0
+%tbl(unk, miscarry) = 0; % this case is impossible
+tbl(pos, miscarry) = -1;
+tbl(neg, miscarry) = -1000;
+if 1
+  tbl(unk, aborted) = -100;
+  tbl(pos, aborted) = -1;
+  tbl(neg, aborted) = -500;
+else % pro-life utility fn
+  tbl(unk, aborted) = -500000;
+  tbl(pos, aborted) = -500000;
+  tbl(neg, aborted) = -500000;
+end 
+end
+
+limid.CPD{U} = tabular_utility_node(limid, U,  tbl);
+
+
+
+engine = jtree_limid_inf_engine(limid);
+[strategy, MEU] = solve_limid(engine);
+
+% Rtriple U(Damnio=1=yes)  U(Damnio=2=no)
+% 1=pos    0               1
+% 2=neg    0               1
+dispcpt(strategy{Damnio})
+if isequal(strategy{Damnio}(1,:), strategy{Damnio}(2,:))
+  % Rtriple result irrelevant
+  doAmnio = argmax(strategy{Damnio}(1,:))
+else
+  doAmnio = 1;
+end
+
+% Rtriple Ramnio U(Dabort=yes=1) U(Dabort=no=2)
+% 1=pos   1=pos  1               0
+% 2=neg   1=pos  1               0
+% 1=pos   2=neg  0               1
+% 2=neg   2=neg  0               1
+% 1=pos   3=unk  0               1
+% 2=neg   3=unk  0               1
+dispcpt(strategy{Dabort})
+