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CRE_RB_and_CCRE
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Major update on CCREClass and some bug fixes in the CRE class. 

CCRE class is now "more logical" from a programing point of view.
Created a fucntion to create the bin-edges for the reference function.
"condensed" the calc function (removed redundancies)
This commit is contained in:
R.J. Renken 2022-03-27 17:12:16 +02:00
parent ce95974c7b
commit e68267182d
3 changed files with 64 additions and 36 deletions
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41
CCREClass.m
View File

@ -12,10 +12,14 @@ classdef CCREClass<CREClass
properties
DataRef %This parameter will contain the reference set.
nBinRef %number of "bins" to use for the reference distribution
CCRE %parameter containing the conditional Cumulative Residual Entropy
EquidistantBinFlag=true; % set to true to get equidistant bins, set to false to get equi-content bins,
% if set to false: each bin will contain (aproximately) an equal
% number of pixel values.
EqualSizeBinFlagRef=false; %set to true to get equally spaced bins, default : false, put an equal number of points per bin.
EdgesRef; %edges for the bins of the reference function. %todo, turn into dep. variable!
end
properties(SetAccess=private) %make read only
CCRE %parameter containing the conditional Cumulative Residual Entropy
end
properties(Constant)
UseHistProxyFlagRef=true; % this value is there to remind the user that we will have to bin the reference image. The actual value is not used in the code
end
methods %constructor
@ -41,6 +45,16 @@ classdef CCREClass<CREClass
end
end
methods %user callable functions
function CalcEdgesRef(obj)
% copy the info for "ref" to a CRE object
Stmp=CREClass('ref',obj.DataRef...
,'nbin',obj.nBinRef...
,'EqualSizeBinFlag',obj.EqualSizeBinFlagRef...
,'UseHistProxyFlag',obj.UseHistProxyFlagRef...
);
Stmp.CalcEdges;
obj.EdgesRef=Stmp.Edges;
end
%% CCRE A|B
%
% $$CCRE = \varepsilon (A) - E[\varepsilon(A|B)]$$
@ -61,21 +75,18 @@ classdef CCREClass<CREClass
if isempty(obj.DataRef);return;end %if no refdata given, return;
%calculate histogram for RefData
EVarEpsDataGivenRef=0; %clear previous calculations
if obj.EquidistantBinFlag
[pDataRef,E]=histcounts(obj.DataRef(:),obj.nBinRef,'Normalization','probability');
[JointHist,E1,E2]=histcounts2(obj.Data(:),obj.DataRef(:),[obj.nBin,obj.nBinRef],'Normalization','probability'); %obtain bin edges for Target
else
prc=linspace(0,100,obj.nBinRef+1); % define the edges of the bins as a precentile
Edges=prctile(obj.DataRef(:),prc);
[pDataRef,E]=histcounts(obj.DataRef(:),Edges,'Normalization','probability');
[JointHist,E1,E2]=histcounts2(obj.Data(:),obj.DataRef(:),[obj.nBin,obj.nBinRef],'Normalization','probability'); %obtain bin edges for Target
%get the edge definition.
% a bit of a workaround, I don't plan to reprogram the function
if isempty(obj.EdgesRef)
obj.CalcEdgesRef;
end
[pDataRef,E]=histcounts(obj.DataRef(:),obj.EdgesRef,'Normalization','probability');
for k=1:numel(pDataRef) %loop over the bins in pDataRef NB: must be equal to the bins in JointHist for the Ref
if pDataRef(k)==0;continue;end% if no data at this line go to the next
ind=E(k)<=obj.DataRef(:)&obj.DataRef(:)<E(k+1); %get an index to all points in Ref data inside the current bin
CRE_DataGivenDataRef=CREClass;
CRE_DataGivenDataRef.Data=obj.Data(ind);
CRE_DataGivenDataRef.nBin=E1; %force the same bin definition for all itterations. This value is ignored if UseHistProxy is set to false
CRE_DataGivenDataRef=CREClass('data',obj.Data(ind)...
,'nbin',obj.Edges...
);
CRE_DataGivenDataRef.Calc;
EVarEpsDataGivenRef=EVarEpsDataGivenRef+pDataRef(k)*CRE_DataGivenDataRef.CRE; % I really have to check this line on merit.
end

29
CREClass.m
View File

@ -3,7 +3,7 @@ classdef CREClass < handle
Data; % the data set to get the CRE off
nBin; %number of bins
Monitor=true; %set to true to get intermediat results/figures
UseHistProxy=true; % set this to get a proxy of the survival function using the hist function
UseHistProxyFlag=true; % set this to get a proxy of the survival function using the hist function
EqualSizeBinFlag=true; % set to true to get equal sized bins, set to false to get equi-content bins,
% if set to false: each bin will contain (aproximately) an equal
% number of pixel values.
@ -12,11 +12,15 @@ classdef CREClass < handle
CRE
RB
P_RB
Edges
end
properties(Dependent)
Edges
end
properties (Hidden)
WaitBarHandle;
HiddenEdges;
end
properties (Constant,Hidden)
alpha=1; %needed for the scaled cummulative redual entropy as defined in zografoss. Will be implemented in the future. (I hope)
@ -38,6 +42,10 @@ classdef CREClass < handle
obj.Data=varargin{k};
case {'nbin','bin'}
obj.nBin=varargin{k};
case {'equalsizebinflag'}
obj.EqualSizeBinFlag=varargin{k};
case {'usehistproxyflag'}
obj.UseHistProxyFlag=varargin{k};
otherwise
error('invalid variable name');
end
@ -52,8 +60,17 @@ classdef CREClass < handle
end
end
end
%% set functions
%% set and get functions
methods
function Edges=get.Edges(obj)
Edges=obj.HiddenEdges;
end
function set.Edges(obj,val)
if ~isnumeric(val);error('provide a array with edge values');end
if numel(val)<3;error('too few edges provided. Need at least 3 values, i.e. 2 bins defined');end
obj.HiddenEdges=transpose(val(:));
obj.nBin=numel(val)-1;
end
function set.Data(obj,val)
if isnumeric(val)
obj.Data=val;
@ -76,7 +93,7 @@ classdef CREClass < handle
warning('nothing to do');
return;
end
if obj.UseHistProxy
if obj.UseHistProxyFlag
if isempty(obj.nBin)
obj.nBin=floor(numel(obj.Data)./10);
end
@ -87,7 +104,7 @@ classdef CREClass < handle
obj.Edges=prctile(obj.Data(:),prc); %find the edges of the bins
end
else
if obj.UseHistProxy ; error('You cannot use EqualSizeBinFlag=true and UseHistProxy=false as a combination');end
if obj.UseHistProxyFlag ; error('You cannot use EqualSizeBinFlag=true and UseHistProxyFlag=false as a combination');end
q=transpose(unique(sort(obj.Data(:))));
dq=diff(q);
obj.Edges=cat(2,q(1)-eps,q(1:end-1)+dq/2,q(end)+eps); %the eps is a "shortcut" to avoid value=edge cases. Note that eps will increase the size of the bin by a very small amount. Although this is a systemetic bias, its effect will be neglectable
@ -118,7 +135,7 @@ classdef CREClass < handle
dl(FC>0.5)=0; %set the weight for all in the histogram to the left side (i.e. <p50) to 0
CRE_Med_Inf=-transpose(dl)*(FC.*LogFC)./(transpose(dl)*FC); %CRE zografos
ind=find(exp(-CRE_Med_Inf)>=FC,1,'first');
if obj.UseHistProxy
if obj.UseHistProxyFlag
obj.P_RB=FC(ind);
if ind==numel(bin)%if RB is (beyond) the last bin,
warning(sprintf('RB is hitting the upper bin value\n Maybe increase number of bins')) %#ok<*SPWRN>

30
TestCREClass.m
View File

@ -6,30 +6,30 @@ A=randn(100);
%% create instance of CRE class
S1=CREClass;
%% Calculate by setting labda equal to each of the (unique) values in the data.
S1.UseHistProxy=false;
S1.UseHistProxyFlag=false;
S1.EqualSizeBinFlag=false;
S1.Data=A;% set gaussian data
S1.Calc;
% use histogram aproximation with unequal bin sizes in the histogram
disp(S1)
%% use histogram aproximation with unequal bin sizes in the histogram
S2=CREClass;
S2.UseHistProxy=true;
S2.UseHistProxyFlag=true;
S2.EqualSizeBinFlag=false;
S2.Data=A;% set gaussian data
S2.nBin=numel(A); % set nbin to npoints; This is fine as we use the cummulative distribution and the formulas as defined in Zografos
S2.Calc
% use histogram aproximation with equal bin sizes in the histogram
disp(S2)
%% use histogram aproximation with equal bin sizes in the histogram
S3=CREClass;
S3.UseHistProxy=true;
S3.UseHistProxyFlag=true;
S3.EqualSizeBinFlag=false;
S3.Data=A;% set gaussian data
S3.nBin=numel(A); % set nbin to npoints; This is fine as we use the cummulative distribution and the formulas as defined in Zografos
S3.Calc
%Check recalculation of edges
disp(S3)
%% Check recalculation of edges
S4=CREClass;
S4.UseHistProxy=true;
S4.UseHistProxyFlag=true;
S4.EqualSizeBinFlag=true;
S4.Data=A;% set gaussian data
S4.nBin=numel(A); % set nbin to npoints; This is fine as we use the cummulative distribution and the formulas as defined in Zografos
@ -40,16 +40,16 @@ S4.CalcEdges ; % force a recalculation of the edges
S4.Calc;
disp(S4)
return;
%% Show effect of scaling or ofsett the data
% Scale
S.Data=100*A;
S.UseHistProxy=true;
S.UseHistProxyFlag=true;
S.Calc;
disp(S);
% Offset
S.Data=A+10;
S.UseHistProxy=true;
S.UseHistProxyFlag=true;
S.Calc;
disp(S);
%%
@ -66,7 +66,7 @@ out(numel(w),1)=struct('w',[],'CRE',[],'CCRE',[],'R',[]);
for k=1:numel(w)
out(k).w=w(k);
CS=CCREClass;
CS.EquidistantBinFlag=false;
CS.EqualSizeBinFlag=false;
CS.Data=1*(1-abs(w(k)))*A+w(k)*B;
CS.nBin=50;
CS.DataRef=B;
@ -86,4 +86,4 @@ disp(CS);
plot([out(:).w],[out(:).CCRE],'o');
plot([out(:).w],[out(:).CRE],'x');
figure(3);clf
plot([out(:).w],[out(:).R],'d')
plot([out(:).w],[out(:).R],'d');