126 lines
3.9 KiB
Matlab
126 lines
3.9 KiB
Matlab
clear all ; close all
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% Load dicom
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name = 'Ronald' ;
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if strcmp(name, 'Ronald')
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path_all = [
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'/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190909_Ronald/FH/DICOM/IM_0001',
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'/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190909_Ronald/AP/DICOM/IM_0001',
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'/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190909_Ronald/RL/DICOM/IM_0001'
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] ;
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end
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if strcmp(name, 'Jeremias')
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path_all = [
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'/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190909_Jeremias/FH/DICOM/IM_0001',
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'/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190909_Jeremias/AP/DICOM/IM_0001',
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'/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190909_Jeremias/RL/DICOM/IM_0001'
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] ;
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end
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if strcmp(name, 'Hugo')
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path_all = [
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'/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190924_Hugo/Dicom/DICOM/IM_0013',
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'/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190924_Hugo/Dicom/DICOM/IM_0009',
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'/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190924_Hugo/Dicom/DICOM/IM_0005'
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] ;
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end
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for i=1:3
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if i==1
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%path = '/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190924_Paloma/Dicom/DICOM/IM_0013'
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disp('Reading the FH component from ...')
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path = path_all(1,:)
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end
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if i==2
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%path = '/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190924_Paloma/Dicom/DICOM/IM_0009' ;
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disp('Reading the AP component from ...')
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path = path_all(2,:)
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end
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if i==3
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%path = '/home/yeye/Desktop/PhD/MEDICAL_DATA/DatosSEPT2019/20190924_Paloma/Dicom/DICOM/IM_0005' ;
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disp('Reading the RL component from ...')
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path = path_all(3,:)
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end
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I_info = dicominfo(path);
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I = double(dicomread(path));
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VENC = eval(['I_info.PerFrameFunctionalGroupsSequence.Item_1.MRVelocityEncodingSequence.Item_1.VelocityEncodingMaximumValue']) ;
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heart_rate = eval(['I_info.PerFrameFunctionalGroupsSequence.Item_1.Private_2005_140f.Item_1.HeartRate']);
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MAG = zeros(size(I,1),size(I,2),I_info.Private_2001_1018,I_info.Private_2001_1017);
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PHASE = zeros(size(I,1),size(I,2),I_info.Private_2001_1018,I_info.Private_2001_1017);
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for n=1:size(I,4)
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RI = eval(['I_info.PerFrameFunctionalGroupsSequence.Item_',num2str(n),'.Private_2005_140f.Item_1.RescaleIntercept']); % intercept
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RS = eval(['I_info.PerFrameFunctionalGroupsSequence.Item_',num2str(n),'.Private_2005_140f.Item_1.RescaleSlope']); % slope
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cp = eval(['I_info.PerFrameFunctionalGroupsSequence.Item_',num2str(n),'.Private_2005_140f.Item_1.Private_2001_1008']); %cp
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slc = eval(['I_info.PerFrameFunctionalGroupsSequence.Item_',num2str(n),'.Private_2005_140f.Item_1.Private_2001_100a']); %scl
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id = eval(['I_info.PerFrameFunctionalGroupsSequence.Item_',num2str(n),'.Private_2005_140f.Item_1.Private_2005_106e']); % PCA o FFE
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if strcmp(id,'FFE')==1
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MAG(:,:,slc,cp) = I(:,:,1,n)*RS + RI;
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else
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PHASE(:,:,slc,cp) = I(:,:,1,n)*RS + RI;
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end
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end
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MASK = double(abs((PHASE==PHASE(1,1,1,1))-1));
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PHASE = PHASE.*MASK;
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if i==1
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MR_FFE_FH = MAG;
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MR_PCA_FH = VENC*PHASE/pi/100;
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end
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if i==2
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MR_FFE_AP = MAG;
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MR_PCA_AP = VENC*PHASE/pi/100;
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end
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if i==3
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MR_FFE_RL = MAG;
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MR_PCA_RL = VENC*PHASE/pi/100;
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end
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end
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disp('Saving the data ...')
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spaceslices = eval(['I_info.PerFrameFunctionalGroupsSequence.Item_1.PixelMeasuresSequence.Item_1.SpacingBetweenSlices']);
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pixelspacing = eval(['I_info.PerFrameFunctionalGroupsSequence.Item_1.PixelMeasuresSequence.Item_1.PixelSpacing']);
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disp('voxel-size recognized:')
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voxel_MR = [pixelspacing(1),pixelspacing(1),spaceslices]
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data = [];
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data.MR_FFE_AP = MR_FFE_AP;
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data.MR_FFE_RL = MR_FFE_RL;
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data.MR_FFE_FH = MR_FFE_FH;
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data.MR_PCA_AP = MR_PCA_AP;
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data.MR_PCA_RL = MR_PCA_RL;
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data.MR_PCA_FH = MR_PCA_FH;
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data.type = 'DAT';
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data.VENC = VENC ;
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data.voxel_MR = voxel_MR;
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data.heart_rate = heart_rate;
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save('/home/yeye/Desktop/data.mat','data','-v7.3');
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disp('data saved')
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