data/multiframe_bmode_plot.m

%% MATLAB Script for displaying real-time B-Mode data in files named "*rt_recon.mat" 

% See "bmode_image_plot.m" for displaying 2D and 3D B-Mode data in files 
% named "*3d_recon.mat"

% See "image_recon_rt.m" for reconstructing B-Mode data from raw RF data in 
% files names "*_raw.zip"

clear;
% clc;
close;

%% Image params
log_compression = true;
dB_range = 40;
orthogonal = false;
slice_dir = 'yz';
video_out = false;
frame_rate = 5.394;
averaging = 0;

%% Load saved B-Mode complex data for plotting in MATLAB/
%    exporting into image data for Origin

%Data file path
filepath = './datasets_lung/';

%File name
filename = 'lung_dataset1_rt_recon';

%Load Complex data
bmode_data_struct = load(strcat(filepath, filename, '.mat'));

%Assign variables
bmode_data = bmode_data_struct.bmode_data;

zI = bmode_data_struct.zI;
if (slice_dir=='xz')
    xI = bmode_data_struct.xI;
elseif (slice_dir=='yz')
    yI = bmode_data_struct.yI;
end

if(averaging)
    bmode_data = sum(abs(bmode_data), 3);
end

N_frame = size(bmode_data, 3);

%% Imaging

if(N_frame==1)
%% Plot 2-D images
    bmode_data = abs(bmode_data);

    if(log_compression)
        %Log compression
        b_mode_temp = 20*log10(bmode_data/max(max(bmode_data)));
        b_mode = (b_mode_temp+dB_range).*(b_mode_temp>-dB_range);
        b_mode = uint8(255*b_mode/dB_range);
        
        %Plot Image
        figure();
        
        if(slice_dir == "xz")
            hP = pcolor(xI*1e2,zI*1e2,b_mode);
        elseif(slice_dir == "yz")
            hP = pcolor(yI*1e2,zI*1e2,b_mode);
        end
        set(gca, 'XAxisLocation', 'bottom', 'XTickMode', 'auto');
        shading interp, axis ij tight equal
        c = colorbar;
        clim([0 255]);
        c.YTick = [0 255];
        c.YTickLabel = {'0 dB',strcat(num2str(dB_range), ' dB')};
        xlabel('X [cm]')
        ylabel('Z (depth) [cm]')
        % set(gca,'XColor','none','box','off')
        title("Lung - XZ Slice");
        colormap hot
        % title(test_name, 'Interpreter', 'none');
        % view(2)
        % hP.DataTipTemplate.DataTipRows(3).Value   = 'CData';
    else
        %Normalization
        b_mode_temp = bmode_data/max(max(bmode_data));
        
        %Plot Image
        figure();
        
        if(slice_dir == "xz")
            hP = pcolor(xI*1e2,zI*1e2,b_mode_temp);
        elseif(slice_dir == "yz")
            hP = pcolor(yI*1e2,zI*1e2,b_mode_temp);
        end
        shading interp, axis equal ij tight
        c = colorbar;
        xlabel('[cm]')
        clim([0 1]);
        c.YTick = [0 1];
        c.YTickLabel = {'0','1'};
        ylabel('[cm]')
        % set(gca,'XColor','none','box','off')
        colormap hot
        % title(test_name, 'Interpreter', 'none');
        % view(2)
        % hP.DataTipTemplate.DataTipRows(3).Value   = 'CData';
    end   
else
%% Multiframe

    %Magnitude of complex number
    bmode_data = abs(bmode_data);

    % bmode_data_diff = bmode_data(:, :, 2:end) - bmode_data(:, :, 1:end-1);
    % 
    % bmode_data = abs(bmode_data_diff);

    % bmode_avg = mean(bmode_data, 3);
    % bmode_data = abs(bmode_data - bmode_avg);

    %Log compression
    b_mode_temp = 20*log10(bmode_data/max(bmode_data,[],'all'));
    b_mode = (b_mode_temp+dB_range).*(b_mode_temp>-dB_range);
    b_mode = uint8(255*b_mode/dB_range);
    
    % frame 27, 39, 51, 65, 75, 92
    figure();
    for i=1:N_frame
    % for i=1:9
        % subplot(1, 3, i);
        % figure();
        if(slice_dir == "xz")
            hP = pcolor(xI*1e2,zI*1e2,b_mode(:,:,i));
        elseif(slice_dir == "yz")
            hP = pcolor(yI*1e2,zI*1e2,b_mode(:,:,i));
        end
        shading interp, axis equal ij tight
        c = colorbar;
        clim([0 255]);
        c.YTick = [0 255];
        c.YTickLabel = {'0 dB',strcat(num2str(dB_range), ' dB')};
        ylabel('Z (depth) [cm]')
        if(slice_dir=='xz')
            xlabel('X [cm]');
        else
            xlabel('Y [cm]');
        end
        % set(gca,'XColor','none','box','off')
        colormap hot
        % title("Frame: "+num2str(i), 'Interpreter', 'none');
        % title("Lung – YZ section, Time = "+num2str(round((i-1)/frame_rate, 2))+" sec")
        % title("Lung – XZ");
        drawnow limitrate;
        F = getframe(gcf);
        img{i} = frame2im(F);
    end

    %% write video
    if(video_out)
        %Find frame with minimum elements (/3 for uint8)
        elementCounts = cellfun(@numel, img)/3;
        [~, min_index] = min(elementCounts);
        
        %Frame parameters
        frameheight = size(img{min_index},1);
        framewidth = size(img{min_index},2);
    
        %Write Video for RT multiframe
        % create the video writer with 1 fps
        writerObj = VideoWriter(strcat(filepath, filename, '.mp4'), 'MPEG-4');
        % set the seconds per image
        writerObj.FrameRate = frame_rate;
        % open the video writer
        open(writerObj);
        % write the frames to the video
        for i=1:N_frame-1
            % convert the image to a frame
            img{i} = imresize(img{i},[frameheight framewidth]);
            writeVideo(writerObj, img{i});
        end
        % close the writer object
        close(writerObj);
    end
end