fpeakselection.m

利用蚁群算法和PSO算法实现MALDI_TOF数据分析

%% Ant Colony Optimization

clear all; close all; clc

y = load ('CaseCirr');

[row, col]= size(y.sample_tr);
objf = @objf_svm_ACOkfold;

%% Calculate Signal-to-Noise ratio

    ca = y.sample_tr(:,find(y.label_tr == 1));
    co = y.sample_tr(:,find(y.label_tr == 3));
        meanca = mean(ca,2);
        meanco = mean(co,2);                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
        stdca  = std(ca,0,2);
        stdco  = std(co,0,2);
    S2N = abs((meanca - meanco)./(stdca + stdco));

S2Nsorted = sortbycold([(1:row)' S2N],2);

%% Run the ACO-SVM Algorithm

%----------------------------------------------------------------------

markers = [];
nruns = 100;             % no: of runs needed for ACO 
m           = 5;       % # features to be selected 
na          = 50;      % # particles/ants
p           = 3;       % range between 1 and m-1.
SSt ={};
for n =1:nruns
    n
    [S_best, best, err_best, err_S_best, err_S2N] = peak_ACO_S2N(y,S2N,m,na,p,objf);
    
    markers = [markers; S_best(1,:)];
    
    save ACO_markers_one markers 
end

%----------------------------------------