Image Processing & Science Applications

Simple GUI in MATLAB guide

2012-01-11T15:25:00.009+07:00

Here, an example of GUI creation utilizing GUIDE in MATLAB. Lay out and program of simple GUI were shown in Figure 1 and 2. Actually, it is in the process of testing, but it is working.

Figure 1. Lay out design for testmenu program.

Figure 2. The testmenu program is running, the program demonstrated open a color image and display RGB signal of the image.

Please download m-file, fig-file and image. >>> Download1, Download 2

Linear regression and R square in MATLAB

2011-12-31T20:15:00.005+07:00

%Here, sample code for linear regression and R square calculation
close all
clear all
%---------- generate x-data and y-data ---------
x=[1,1.2,1.53,1.64,2.15,2.36];
y=[151.4,142.9,135.3,116.42,91.9,70.8];
%----------- Linear regression -----------------
p= polyfit(x,y,1);
f= polyval(p,x);
%----------- Call R-square function ------------
r2=Rsquare(x,y,p);

%------------- Plot data -----------------------
figure()
plot(x,y,'*k');hold on
plot(x,f,'-r'); % show linear fit
xlabel('index');
ylabel('Intensity a.u.');
title('Test: Linear regreesion && R-square');
%------- Show y-data on current figure ---------
[row col]=size(y);
for i=1:col
str=num2str(y(i));
text(x(i),y(i),str,'Color',[0 0 1]);
end
%--Show linear equation on current figure -------
m1=num2str(p(1));c1=num2str(p(2));Rsquare1=num2str(r2(1));
text(1.05,80,['y= ',m1,'x+',c1,' , R^2= ',Rsquare1,'.'],'FontSize',10,'FontName','Times New Roman');

save source code in function file

%---------The function return R-square value -------------
%--------- input data ==> x-data, y-data and p-data ----
%--------- output data ==> r2
function [r2]=Rsquare(x,y,p)

Ymeasure=y;
Ycalculate=(p(1)*x)+p(2);
meanY=mean(Ymeasure);
deltaY2=sum((Ycalculate-Ymeasure).^2);
distanceY2=sum((Ymeasure-meanY).^2);
r2=1-(deltaY2/distanceY2);
%-------------------------------------------------------

Browse file in MATLAB

2011-12-31T20:03:00.004+07:00

% Here, example source code for browse image file from any where, then show the image.
close all
clear all
%-----------------------------------
[F,PathName,FilterIndex] = uigetfile({'*.*','All Files(*.*)'}, 'Select your File ');
loadimage = strcat(PathName,F);
input = importdata(loadimage);
%------------ Display --------------
figure()
image(input); axis off
title('Original image');

Image Processing

2007-03-16T22:24:00.000+07:00

What is Image Processing?

"Image Processing involves changing the nature of an image for interprets image data to human understanding”

Alasdair McAndraw

Image Processing with MATLAB (Basic)

2007-03-12T14:57:00.001+07:00

In this section: We processing the image with MATLAB code.
We will start with the basic and to make progress to advance level together.

MATLAB: lesson1 "load image to MATLAB"

Getting Start
Don't forget "The file must be in the current directory or on the MATLAB path"
(In this blog Comment are green texts start after %(comment))

Function
:imread
Description
:reads a greyscale or color image from the file specified by the string 'filename'

Note: Please download bubbles.jpg to your computer first (ex. E:\Blog)

Example 1
read image
>>M=imread('bubbles.jpg'); %(imread returns the image-file data in the array 'M')

View this image with

>>imshow(M); %(displays the intensity image M)
or
>>imview(M); %(displays the intensity image M)

like this Fig.

Example 2
read image sequence
download This File to your computer first
(this contain image01.tif-image05.tif & Read_image_Series.m)
%%%%%%%%%%
clear all
b = 1; %(first image)
npic = 5; %( last image)
for i=b:npic;
str = num2str(i); %(convert number 'i' to string)
name = strcat('','image0',str,'.tif'); %(('','image0',str,'.tif') :''=directory contain file.'image0'=incomplete file name. str = string mean that 1.'.tif'= file format all of this mean that name is image0str.tif=image01.tif)
MAT = imread(name);
figure() %( reserve figure)
imshow(name); %(display image name)
title(i); %( show title in each image with the no.)
end
%%%%%%%%%%

Function
:aviread
Description
:Read an Audio/Video Interleaved (AVI) file

Example 3
read avi file
download avi file to your computer
%%%%%%%%%%

>>Ar=aviread('movie01.avi');

Example 4
make avi file
download Image Series to your computer
%%%%%%%%%%

clear all

b = 16;
npic = 60;
mov = avifile('MakeVi01.avi') %MakeVi01.avi name of avi-file save to your comp.
for i=b:npic;
str = num2str(i);
name = strcat('ImageSe/','SPT200',str,'.tif'); % ex. image1.tiff : (file name= 'SPT200')
MAT = imread(name);
imshow(MAT);
axis off;
title(i);

F(i) = getframe(gca);
mov = addframe(mov,F(i));
end
mov = close(mov)

=============================================================

MATLAB: lesson2"Filtering in MATLAB"

Function
:Y= filter2(filter,image,shape)
Description
:returns the part of Y specified by the shape parameter. shape is a string
with one of these values:

'full' Returns the full two-dimensional correlation. In this case, Y is larger than X.

'same' (default) Returns the central part of the correlation. In this case, Y is the same size as X.

'valid' Returns only those parts of the correlation that are computed without zero-padded edges. In this case, Y is smaller than X

Example 1
download file
%%%%%%%%%%

>> clear all
>> a=imread('cute01.tif');
>> imshow(a);
>> Fil=fspecial('average');% function fspecial is one(3,3)/9
>> aFilter=filter2(Fil,a);
>> imshow(aFilter/255);

Image Series

Image Processing: Application to Dynamics Experiment

2007-03-11T02:53:00.000+07:00

Biophysics Application Approach

One of important applications of image processing are in the areas of biophysical image processing. For example; study a trajectory path of drug delivery in living cell; study dynamics of nuclear in living cell; measure transport properties of bead in cytoskeletons network etc.

Particle Tracking: Image processing technique used to follow the spot-like particle. The result from this technique is a positions of spot-like particle (or trajectory of spot-like particle). Most of this technique used to classification of motion and calculate transport properties.
=====================================================

Single Particle Tracking

Technique is used to adjacent to single particle or small cluster molecule, as a result positions of particle which is reveal the behavior of the particle.

Dynamics Theory : Diffusion through Mean Square Displacement (MSD)

Neville E. Sanjana lecture "Brownian motion is named for Robert Brownian, who published a paper on his observations of pollen particles. "

For more detail (MSD)...>>>

Robert Brown...>>>

Stochastic papers...>>>(Prof. Hanggi)

Mean Square Displacement

2007-03-09T16:15:00.000+07:00

MATLAB script for MSD

Image Processing Part 2

2007-03-08T21:41:00.001+07:00

Fourier Transforms of Image

1D Discrete Fourier Transform

MATLAB function for Fourier Transform
- fft : take Discrete Fourier Transform of a vector
- ifft : take the inverse Discrete Fourier Transform of a vector
-fft2 : take Discrete Fourier Transform of a matrix
-ifft2 : take the inverse Discrete Fourier Transform of a matrix

To study, How the Fourier Transform work? Should be down load This file to your computer.

the product of this function show below

...............................................................................................
We thanks
Prof. A. McANDRAW for image processing book
McANDRAW,A.,2004 Introduction to Digital Image Processing with MATLAB
(Thomson course technology)

Focused Journal Links

2007-02-10T19:29:00.001+07:00

1. Lab on a Chip

2. Microfluidics and Nanofluidics

3. Biophysical Journal

4. Nuclear Instruments and Methods in Physics Research Section B: Beam Interactions with Materials and Atoms (NIM B)

My bookmarks

2006-09-20T17:06:00.001+07:00

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Annual Reviews: Annual Review of Genetics: Table of Contents: Table of Contents for Annual Review of Genetics. List of articles from both the latest and forthcoming / reviews in advance issues.
New Journal of Physics latest papers: Co-owned by the Institute of Physics and Deutsche Physikalische Gesellschaft, New Journal of Physics is an open-access, electronic-only research journal covering the whole of physics. The editorial scope encompasses pure, applied, theoretical and experimental research, as well as interdisciplinary topics related to the subject.
Annual Reviews: Annual Review of Biophysics: Table of Contents: Table of Contents for Annual Review of Biophysics. List of articles from both the latest and forthcoming / reviews in advance issues.
Physics Today magazine: The magazine for the physics community
SpringerLink - Journal

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