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Brain MRI Tumor Detection and Classification

version 1.0.0.0 (462 KB) by Manu BN
A Matlab code for Brain MRI Tumor Detection and Classification

261 Downloads

Updated 15 Feb 2016

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A Matlab code is written to segment the tumor and classify it as Benign or Malignant using SVM.
The features used are DWT+PCA+Statistical+Texture
How to run??
1. Unzip and place the folder Brain_Tumor_Code in the Matlab path and add both the dataset
2. Run BrainMRI_GUI.m and click and select image in the GUI
3. Segment the image and observe the results of classification
4. Evaluate accuracies
The code is loosely based on the paper below (included), please cite and give credit to authors:
[1] Zhang, Yudong, and Lenan Wu. "An MR brain images classifier via principal component analysis and kernel support vector machine." Progress In Electromagnetics Research 130 (2012): 369-388.
Note: Segmentation of skull regions is an ongoing task, will upload a better code once it is over
Comments and suggestions are always welcome

Thanks in advance

Manu B.N

Cite As

Manu BN (2019). Brain MRI Tumor Detection and Classification (https://www.mathworks.com/matlabcentral/fileexchange/55107-brain-mri-tumor-detection-and-classification), MATLAB Central File Exchange. Retrieved .

Comments and Ratings (165)

Vinay ReddY

Send me thecode
kamireddyvinay9494@gmail.com

Please provide me the code and data set at my email id ingarza0@gmail.com. Thanks

Rao Fahad

Sir plz provide me code and data set at my email id
fahadasad51@gmail.com

Sir can you please provide me the code n dataset. I need it as a reference for my project.
vtu7971@veltechuniv.edu.in
Thanks in advance!

yang xu

Sir, can you please provide me the dataset to 13336153845@163.com

mena essam

Sir, can you please provide me the dataset to menaessamkaram@gmail.com

Sir, Can you please send me dataset to Email ID- d36987143@ym.edu.tw. Thank you!!!

Sir, can you provide the dataset too? Email Id: arshad.ayesha914@gmail.com

Sir, could you please send me the dataset to my email id: aswinsatheesan45@gmail.com
Thank you

abbas alvi

hey Sir could you please tell me how to open trainset.mat??

Sir,
Can you please send me dataset to Email ID- romiNath2018@gmail.com
Thank you very much

Hi Sir, could you please send dataset to emmazhanghx@gmail.com? Thank you very much.

Samad Wali

Sir, can you please send me the data set to my email id- samad.walikhan@outlook.com?
Thanks a lot

Sir, please, send me the full code and all research paper files to my mail is: 318058@mail.dhu.edu.cn

Hi, how you are create labeling (benign and malignant) in Trainset.mat file.

Anand Singh

Sir, please, send me the full code and all research paper files to my mail is: singh.anand5775@gmail.com

Sir, please provide me the data set along with the code to email id- rosearya94@gmail.com.
thankyou.

MURALI E

Sir, kindly send the Entire source code for the following Mail id : sai4murali@gmail.com

ESARI KIRAN

Sir...the link that you have given is for SVM. Can you please provide me the code for training and classification of brain tumor using SOM to the following Email-Id : esarikiran75@gmail.com ?

no dataset . detection by classification supervise not work for dicom because you need apprentissage for all the patient you put 3 photos and all your work about him thx

Sir, Can you please provide me dataset to Email ID- manmohansinh.pardeshi@walchandsangli.ac.in

Bernice El

If you're still working on this project & you're done with yours, I think it would be nice if we share our thoughts about it, & those having problems can get answers.....join this group on WhatsApp https://chat.whatsapp.com/KeQG3T4AQFD8RX5ZLQJgbB

Respected Sir,
Can i get the dataset used for the Brain Tumor detection and classification to my mail id triveni.aishu@gmail.com

kusuma d

Rakesh Das

can I get the datasets used in it.
if, possible kindly send me it in
spool1066@gmail.com

Sir, can you give me the dataset at nayeemxtreme@live.com if possible?

Sir,Can i get the dataset used for the Brain Tumor detection and classification.Please share at zenith4cse@yahoo.com (if possible)

Sir, It was really helpful for our project. Is it possible that you can provide us with the dataset for this task? It would be an enormous help. If it is possible, please mail it to Email address:dasd639@gmail.com. Thanks anyway, Sir.

Sir, could you please provide me the dataset. I need it for a project at technical university Munich dealing with Matlab models in biology. My mail address: jacqueline.hoell@tum.de

Best regards,
Jacqueline

Sir,please provide me dataset to satyasundara123@gmail.com for my research work. i am very very greate full to you

Zee Idrees

Sir,Can you please provide me dataset to zeeidrees79@gmail.com for my final year project?

Misti Kumra

Sir,Can you please provide me dataset to samia.cse.cu@gmail.com for my final year project?

Anusha .

Sir,Can you please provide me dataset to ashawlin@gmail.com for my undergrad project? i am badly in need of brain tumor dataset.

What do the values in the meas matrix represent?I cannot understand how are connected with the labels.
And generally is SVM classification as descent as a deep learning CNN trained to detect tumors??

Aadil Kazmi

Good Work...But no Dataset and Fig file...

Sir, can you please provide me the dataset to aravindreddyveerati@gmail.com.

vylia

GOPIKA SREE

sir can you provide me the dataset to the mailid:gopika.gopinathannair@gmail.com im a research scholar im in need of brain tumor dataset

type of tuomor and rest of the part not showing up.only segmented image coming.what to do?

mamta meena

I an getting following error when I tried to run the code please help me regarding this.
"Error using load
Unable to read file 'Trainset.mat': no such file or directory."

hello, I am getting following errors. can you help me please?

To use 'dwt2', the following product must be licensed, installed, and enabled:
Wavelet Toolbox

Error in BrainMRI_GUI>pushbutton2_Callback (line 140)
[cA1,cH1,cV1,cD1] = dwt2(signal1,'db4');

Error in gui_mainfcn (line 95)
feval(varargin{:});

Error in BrainMRI_GUI (line 46)
gui_mainfcn(gui_State, varargin{:});

Error in
matlab.graphics.internal.figfile.FigFile/read>@(hObject,eventdata)BrainMRI_GUI('pushbutton2_Callback',hObject,eventdata,guidata(hObject))
Error while evaluating UIControl Callback.

Error using svmtrain (line 230)
svmtrain has been removed. Use fitcsvm instead.

Error in BrainMRI_GUI>pushbutton3_Callback (line 226)
svmStruct_RBF = svmtrain(data(train,:),groups(train),'boxconstraint',Inf,'showplot',false,'kernel_function','rbf');

Error in gui_mainfcn (line 95)
feval(varargin{:});

Error in BrainMRI_GUI (line 46)
gui_mainfcn(gui_State, varargin{:});

Error in
matlab.graphics.internal.figfile.FigFile/read>@(hObject,eventdata)BrainMRI_GUI('pushbutton3_Callback',hObject,eventdata,guidata(hObject))
Error while evaluating UIControl Callback.

Error using svmtrain (line 230)
svmtrain has been removed. Use fitcsvm instead.

Error in BrainMRI_GUI>pushbutton3_Callback (line 226)
svmStruct_RBF = svmtrain(data(train,:),groups(train),'boxconstraint',Inf,'showplot',false,'kernel_function','rbf');

Error in gui_mainfcn (line 95)
feval(varargin{:});

Error in BrainMRI_GUI (line 46)
gui_mainfcn(gui_State, varargin{:});

Error in
matlab.graphics.internal.figfile.FigFile/read>@(hObject,eventdata)BrainMRI_GUI('pushbutton3_Callback',hObject,eventdata,guidata(hObject))
Error while evaluating UIControl Callback.

Hello Its not classifying the tumor I am using matlab r2018a version. Waitbar appears and it doesnt end.

Nebil Divay

Sir can you also provide the .fig file ?

what are the documentation to apply mRMR algorithm and than Extremely randomized on the extracted features?

plz send me code @ dhannok74@gmail.com

SantosG

ravi teja

Sir please tell how to open trainset.mat

Please sir record one video on this file, how to run...... And give us a link to download the video......

ambily c

Myself, MTech scholar, from Kerala. I am trying to do mini project related to Brain tumor classification. I would like to classify tumor into benign and malinent using PNN classifier. I request you to kindly provide me with the datasets and programming details need to compleate the work "IDENTIFICATION AND CLASSIFICATION OF BRAIN TUMOR MRI IMAGES WITH FEATURE EXTRACTION USING GLCM AND PROBABILISTIC NEURAL NETWORK"

SantosG

geng p

When I run this code, some error shows in matlab. can you give me the better version of this code? thanks.

??? Undefined function or method 'rms' for input arguments of type 'double'.

Error in ==> BrainMRI_GUI>pushbutton2_Callback at 157
RMS = mean2(rms(G));

Error in ==> gui_mainfcn at 96
feval(varargin{:});

Error in ==> BrainMRI_GUI at 46
gui_mainfcn(gui_State, varargin{:});

Error in ==>
@(hObject,eventdata)BrainMRI_GUI('pushbutton2_Callback',hObject,eventdata,guidata(hObject))

ver very wonderful, But I have a question: how I can make trainset with meas and label? this file made after image preprocessing?

Manasa Bhat

Hello sir can you please share the link of the dataset on this mail id -gbmanasa96@gmail.com

Manasa Bhat

Sir, can you provide the dataset too? Email Id: jshatakshi@gmail.com

Sibi K

Sir,how to segment the images which shows the Normal tissue also except for Malignant and Benign Tumor tissue when we put the normal brain images and segment it.

Sibi K

Sir,how to segment the images which shows the Normal tissue also except for Malignant and Benign Tumor tissue when we put the normal brain images and segment it.

lamiaa

please could you send me the link of the database on this email : eng_Lamiaa19@yahoo.com

alice liow

@Manu B. N hello sir. may i know how to create the Trainset.mat and Features.mat
plz send me code of that on jiayu_0321@outlook.my
Its urgent. thanks

@Manu B.N hello sir from the image set how can we get the Trainset.mat file can you please explain me! its very urgent sir

mamta meena

Where is the dataset

Sir,can you give me the Matlab code which shows the Normal tissue also except for Malignant and Benign Tumor tissue when we put the normal brain images and segment it.

Dear Author, I would like to use your MRI dataset in my research work. And the copyright should be issued from you (and MATLAB?). The relevant journal paper was submitted to Scientific Reports. Would you please share me the copyright of the MRI data and tell me where I can apply this documents? Thank you very much.

hello sir
Dear sir,
I am Arjun budgurjer form manit Bhopal I would like to ask you about this project. you have implemented this project for one image input at a time but I also implement this project for multiple images input at one time. I would like to request to help me to do this project.
thanks and regards

Hello Sir,
I am graduate student , I request you to please share dataset on this email: angeljcarrillo@gmail.com

thank you so much sir,it was very much useful

how to run code with gray scale image

Omer Kasim

G = pca(DWT_feat); in older verison its usage -- G = princomp(DWT_feat);

Anu Garg

Reema A

Hai Sir,
Could you plz send me the codes for training mat file generation at reemamathew@vjec.ac.in

hello sir,

i am pg student , i request you to please share dataset on this email: pulkeshharan@gmail.com

asim ashfaq

ahmed usama

hey sir , is the training set is the same testing set included in the zip file ?? i am asking where is the training set ? and how i can make the training vector ?

Janee Alam

I want to implement Tumer or No Tumer and then Malignant or Benign Tumor.

if strcmpi(species,'MALIGNANT')
helpdlg(' Cancer Cell Detected ');
disp(' Cancer Cell Detected');
when I replace MALIGNANT with another keyword, it does not changed. Shows MALIGNANT. I have the questions from where MALIGNANT or BENIGN comes from in guide window after running the code? Would you please explain it?

can i get code for svm classification. i have used haralick features vinutha793@gmail.com

I want to add the classification as Brain Tumor or No Tumor and then Malignant or Benign Tumor.
Can anyone help mi..?

Manu BN

@paul: its included as a function
@Kirti: go thro the paper
Thanks to all for the ratings

sir i need features codes

Mani Shan

Sir can u please provide me an overview of this project and whether applying any other segment technique will increase the accuracy of the project?

kaaviya ram

hi sir pls help me for classification brain tumor by FN-ANN

kaaviya ram

suja s

Can you please tell me how to create training vectors.I need to train and classify using SOM and KNN

Mahes N

Thank you sir, you do a great job.
This application apply for genetic algorithm in my thesis so how to implement this code and can you give me suggestion.

hello sir i am a PG student and doing project on MRI image classification using SVM ..please send codes and procedure my email id bishaljit555@gmail.com

Neffati

THANKS A LOT ........

Hello sir!! I am postgraduate student and doing a project on digital image processing with theme "transcent on medical imaging (MRI)". Thank you for help me with your code.

Kavinkumar

good work

hello sir i am pg student and doing project on an analysis of radiology reports by using svm please help me regarding my project.how to run image features and all send me the matlab code vipulsawake@gmail.com

Manu BN

@ Paul: Why grayscale ??
thanks for the ratings

Ankit Dey

i can't find the download link to source code ....please help me and provide the download link
thnk u

Boni_Pl

Nice work.But how to implement this program for gray scale image,kindly help me.

Manu BN

You dont have all the necessary tool boxes. So you are getting errors.

Suyog Gupta

While running the script in Matlab r2012a classification & features are not available. Does this code run only on r2013 ?? plz help

Aisha Khan

i am getting the following error please help
i am using matlab 2012

>> load('Trainset.mat')
>> load('Normalized_Features.mat')
>> BrainMRI_GUI
Undefined function 'pca' for input arguments of type 'double'.

Error in BrainMRI_GUI>pushbutton2_Callback (line 145)
G = pca(DWT_feat);

Error in gui_mainfcn (line 96)
feval(varargin{:});

Error in BrainMRI_GUI (line 46)
gui_mainfcn(gui_State, varargin{:});

Error in
@(hObject,eventdata)BrainMRI_GUI('pushbutton2_Callback',hObject,eventdata,guidata(hObject))


Error while evaluating uicontrol Callback

Manu BN

You have to be specific about the question

GOPIKA SREE

two matrix files are there based on what those files are created sir

Manu BN

@ gurleen:The syntax for SVM is different in latest versions. Are u using GA to minimize cost function ???
Thanks for the rating.
@ alaa: The paper is included with the code
@sanjeev: use load command

Sir,
will this code only run on 2013a?
and I am working on a Project similar to this i.e. brain tumor detection and classification using genetic algorithm. So can you give me suggestion how can I incorporate GA into this code?

thanks a lot for perfect application can you download pdf explination for the code plz

@ManuBN sir how to load the dataset that u have donein this project i want to understand that

thanks

Manu BN

@ Shah: Use Matlab 2013, right click on the benign & malignant folders and add them to path
@sandhya: u cant segment by svm, you can classify by svm for sure

hi sir
this is sandhya.can we use SVM for brain tissue segmentation.

jinal shah

help me out sir.. ur topic is very interesting and i want to run and understand the code..

i am getthing following error.. help me to rectify it
>> BrainMRI_GUI
Undefined function 'pca' for
input arguments of type
'double'.

Error in
BrainMRI_GUI>pushbutton2_Callback
(line 145)
G = pca(DWT_feat);

Error in gui_mainfcn (line 95)
feval(varargin{:});

Error in BrainMRI_GUI (line 46)
gui_mainfcn(gui_State,
varargin{:});

Error in
@(hObject,eventdata)BrainMRI_GUI('pushbutton2_Callback',hObject,eventdata,guidata(hObject))


Error while evaluating UIControl Callback

>>

we are working on similar project 'Brest cancer detection using matlab ' but we are unable to create the Trainset.mat and Features.mat plz help us send me code of that on abhijitdalavi@gmail.com thanks

Manu BN

No, I just checked, it classifies correctly. I'm quite sure about that

Siva

Hi Nice work.You have two image data sets Benign and Malignant. But when you run the segmentation, even the images loaded from the benign data set are being classified as Malignant. Can you clarify on this. Thanks for your time ,much appreciated.

Manu BN

While evaluating accuracies if u get an error, click on the same button again and again until u get the results. I'm still working on it to fix it fully.

Sajanaji

Hi manu

I just imported train and test matrix into workspace,run gui,then selected segmentation,it gave me segmented image.
then i clicked on RBF accuracy ..
I am getting the following error.same for all other accuracy test.
please help me to solve this .
Error using svmclassify (line 53)
The first input should be a struct generated by SVMTRAIN.

Error in BrainMRI_GUI>pushbutton3_Callback (line 227)
classes2 = svmclassify(svmStruct_RBF,data(test,:),'showplot',false);

Error in gui_mainfcn (line 96)
feval(varargin{:});

Error in BrainMRI_GUI (line 46)
gui_mainfcn(gui_State, varargin{:});

Error in @(hObject,eventdata)BrainMRI_GUI('pushbutton3_Callback',hObject,eventdata,guidata(hObject))


Error while evaluating uicontrol Callback

Manu BN

Follow every steps that I have given. Make sure u hav full version of Matlab with all the necessary toolboxes.

sir i downloaded the ip file but the gui after loading image is not showing next steps results like segmentation kindly help i m using matlab 2013a

sir i am not getting to download the zip file i did the segmentation of tumor by thresholding segmentation please help my net step is classifiaction

Manu BN

The images were given to me by a friend who is a researcher with tumors.

ok can i know from where did u get the tumor images from... thanks

Manu BN

Thanks for the rating, Workout the basic Matlab svm classification example using Fishir Iris dataset. Then you will easily understand it.

i understood the code till the glcm part... but in the svm classification part where u loaded the training data and used....
xdata = meas;
group = label;
svmStruct1 = svmtrain(xdata,group,'kernel_function', 'linear');
species = svmclassify(svmStruct1,feat,'showplot',false);

if strcmpi(species,'MALIGNANT').

i tried to get this part so much but wasn't able to get. just by string comparing with species(which is of the svm classify), how are u able to classify into benign and malignant, i din get. plsbrief me, thanks.

Manu BN

@madan: Benign are non cancerous cells, just a lump of abnormal cells. Malignant are cancerous cells which are known to be elastic in nature. So the texture of both of these will be totally different. Naked eyes cant tell the difference. Go thro articles about GLCm features for texture. Workout Matlab basic examples on it to get more insight into it.
@Afshin: thanks for the rating.

can i know on what basis is the tumors classified?? what's the criteria for benign and malignant classification from the homogeneity,energy, correlation, kurtosis, idm etc. i didn't get the svm classification of it. can u please help me in it?? thanks

Manu BN

@ Sandhya: Its 3 level decomposition. Perform feature scaling and mean normalization for both test and train data. Add more features to the existing ones. These two steps mean that u have to do the entire project again!!!! Max of 2-3 days.

sir
for all kernels around 80% accuracy is a obtained.is it a single level wavelet decomposition.how can these accuracies can be increased. please help me sir.

Sir i am using only 4 texture features(contrast, correlation, energy and homogeneity) for classification. I think 20 images is not enough for training, can i get more classified images.

Osama Abbas

I made something different for brain tumor detection depending on solidity of the image. it's also good, but not as good as this

Manu BN

20 images are used for training each type. Plz rate the project if you find it useful for your academic work.

sir how many images are used for trainning

Manu BN

It is already included in zip file

neima enad

please can send mri database of brain tumor that have variants type of maligants and bengins thanks

Manu BN

I just ran the code but not getting the errors you mentioned. I'm quite sure you are making some mistake. Use Matlab 2013 or higher versions.
156 downloads in 15 days but no one got the errors you are saying.

sir its good.but i am getting some errors like
Error using svmclassify (line 53)
The first input should be a struct generated by SVMTRAIN.

Error in BrainMRI_GUI>pushbutton2_Callback (line 182)
species = svmclassify(svmStruct1,feat,'showplot',false);

Error in gui_mainfcn (line 96)
feval(varargin{:});

Error in BrainMRI_GUI (line 46)
gui_mainfcn(gui_State, varargin{:});

Error in
@(hObject,eventdata)BrainMRI_GUI('pushbutton2_Callback',hObject,eventdata,guidata(hObject))


Error while evaluating uicontrol Callback

can you please help me

Manu BN

Now check , I have used the normal zip files.

Hi,
I tried. Still the same issue. Can you please upload the file without .zipx format? really big favor

Manu BN

Use the latest version of winzip. The file is in .zipx format . only a latest winzip can open it.

Hi..

Can you please upload the MATLAB program ?
This ZIP file isn't working

split range

Manu BN

@Mia plz download the zip file, code is there in it

I NEED THE PROGRAMME MATLAB OF THE DETECTION OF THE TUMOR BRAIN

Updates

1.0.0.0

.Zip files are added as zipx was found incompatible for many people.

MATLAB Release Compatibility
Created with R2013a
Compatible with any release
Platform Compatibility
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