MRI Brain Segmentation Code.zip

[Gilbert]

Click the link provided below to download MRI Brain Segmentation Code.zip

version 1.5.0.1 (2.6 MB) by Robert Bemis

Neuroimaging Case Study for seminars and webinars.

This case study shows how MATLAB can be used for a medical imaging problem. Given an MRI scan, first segment the brain mass from the rest of the head, then determine the brain volume. Also compare portions of gray and white matter present. This example was developed for seminars. It was also used for webinars for medical applications broadcast live on May 6, 2004.
This package includes some MATLAB code and an MRI scan series consisting of 60 DICOM images. Note that this code relies on MATLAB Central submissions from others. Detailed references to those sources are included.

File Name     : MRI_Brain_Segmentation_Code.zip
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[Gilbert]

Comments....

AZama    25 Aug 2015    0.4492 0.4492 5.0000
Carlos Caldera    10 Aug 2018    appreciate it if you send me the code npq988[at]my.utsa.edu or cjacobcaldera[at]*.com
faisal aziz    25 Oct 2016    can any one send me the algorithm for 3d reconstruction from segmented mri 2d slices in matlab????
orchis_2005    29 Jun 2016    Can I get the codes please?
 Thanks!
AKS    21 May 2016    Can I get the codes please?
 Thanks!
devabhaktuni phaneendrababu    7 Aug 2013    Can you please help me how to download this file
saladi saritha    27 Sep 2016    can you please provide me the code for my study project? my email id: saritha.saladi3188[at]*.com
aalishan ali    3 Sep 2016    can you send me the code please ? aalishan0806425[at]*.com
fateen nur nadhira    24 Sep 2016    can you send the code to me please? fateennad94[at]*.com
fateen nur nadhira    24 Sep 2016    can you sens the codes to me, i need to do brain segmentation for alzheimer disease
Arjun KV    23 Dec 2016    could you mail me the code for the same.
 arjungopinath310[at]*.com
Sheena Ratnam Priya    27 Jan 2016    could you please help me on tumor extraction and area calculation?
 sheenasandie1794[at]*.com
sai govind    12 Feb 2017    could you please provide me this code.
 thank you.
 govind.sai62[at]*.com
Mahdi Ali Warsame    15 Dec 2017    could you please provide me this code.
 thank you.
 mahdi.abdulle[at]ogr.sakarya.edu.tr
fwteinh zosimidou    27 Nov 2017    Could you please provide me with the code?
 fwteinhzosimidou[at]*.com
Laila    22 Nov 2017    Could you please provide me with the code?
 umisraa20[at]*.com
islam abdelhamid    5 Jun 2017    could you please send me your code my e-mail is iabdelhamid3[at]*.com
Bala Subramaniam    1 Dec 2016    Could you please share the codes for this topic ??Thanks in advance
 Mail id : bsubramaniam11[at]*.com
shaheen kanwal    4 Jun 2016    could you send me the code please ?
 shaheenkanwal1995[at]*,com
 Thanks :)
sheetal wadhai    13 Aug 2016    Could you send me the code please?
 it very imp so please send the code
 sheetalwadhai05[at]*.com
Mac    3 Aug 2016    Could you send me the code please?
 mrungta13[at]*.com
 Thanks!
mariam    24 Feb 2012    dear All, would you please guide me how I can 1/8 of volume image I mean I can reconstruct the volume image but I do not know how to extract for example 90 degree volume slice of it. I appreciate your help
Ayani Kapugama Arachchi    8 Dec 2015    Error in ==> imtool at 173
  if ~internal.images.isFigureAvailable()
Hieu Lam    4 Mar 2015    Error in analyze_series8 (line 47)
 imview(im,[0 max_level])
Hassan R    19 Aug 2018    free.psk[at]*.com
priya dharsini    10 Feb 2012    good work sir. iam a PG student doing project on the same. I dont know how to split white matter from a brain MRI image using matlab.Will you please help me. My mail id is dharsiniece[at]*.com
Peng Dai    9 Apr 2015    great tools, it's based on old version of Matlab. have to make a little change to run on version2012
Jasvir Bahl    20 Oct 2017    Great video but would I please be able to get the code? I am a PhD student in Australia
Jasvir Bahl    20 Oct 2017    Great video but would I please be able to get the code? I am a PhD student in Australia. jasvir.bahl[at]*.com
muhaimin mahfudz    22 Jul 2018    greetings, appreciate to send me the code at mexicanthugz[at]*.com. currently an undergrad student segmenting brain mri
SUNG WON KIM    7 Jan 2018    Hello
 I am medical student. Can you please send the code to my email?
 trevoriu2582[at]yonsei.ac.kr
 Thank you very much.
sheetal wadhai    13 Jul 2018    Hello
 Please send me the code to my email please.
 sheetalwadhai05[at]*.com
Javaid Iqbal    1 Apr 2018    Hello
 Please send me the code to my email please. Thanks.
 javaid.ciit[at]*.com
Usama Adil    2 Jun 2018    Hello
 Send me code to email please
 Thanks
 usamabuz[at]*.com
Kifra Franckie    6 Jul 2018    Hello ... I appreciate a lot your demonstration.... Would you please send me the code to fkifra[at]*.com
Friedman MAHARILAZA    16 Apr 2018    Hello everyone!
 How to select one image on montage and choose between the multiple images to select, please?It's my problem now!
 Please send me the code to my email please. Thanks.
 friedman.maharilaza[at]*.com
Yameng Liu    24 Oct 2016    Hello I am a graduate student working on medical image segmentation. Can you share me the codes?
 Thanks
Muhd Harith Mohd Johan    29 Nov 2017    Hello i am student need to have coding for my assignment. Please email to me at muhdharithmohdjohan[at]*.com.
APS    19 Jul 2018    Hello please send me the code to my email please.
 amalsnair34[at]*.com
Seung Yong Lee    7 Dec 2016    hello sir , can you email me the code at
 lsy920607[at]naver.com ?
 I need it to make segmentation for the brain image
 it very imp so please send the code
[at]MSM    17 Oct 2016    hello sir , can you email me the code at
 masusm89[at]*.com
 I need it to make segmentation for the brain image
Tran Thai Son    8 Dec 2016    hello sir , can you email me the code at
 tranthaison226[at]*.com ?
 I need it to make segmentation for the brain image
 it very imp so please send the code
reshma hiralal    20 Oct 2016    hello sir,
 i am a pg student working in image processing, i am working on MRI brain image segmentation. can u share me the codes. as the downloaded code is not working.
 mail id: reshma.hiralal[at]*.com
NTUT    19 Sep 2014    Hello Sir, I am PhD student of National Taipei University of Technology. i doing a project in dementia with MRI brain images using freesurfer and Matlab software. can you please tell me how to run new subject of images in Matlab. thank you! My email id is: avichandra0420[at]*.com
Stamatis Vroutsis    25 Apr 2018    Hello! your video was very helpful! I want to make a project, can you please send the hole code of BrainScan.m?: stam_v[at]*.gr
 Thank you in advance
Christopher Rahimi    28 Mar 2017    Hello,
fatma    21 Oct 2016    Hello,
Wenjun Wu    18 Oct 2016    Hello,
Sue123    22 May 2017    Hello,
 I downloaded code but it is not working. I had error code this :
 Error using imview (line 7)
 Function IMVIEW has been removed. Use IMTOOL instead.
 Error in analyze_series8 (line 47)
 imview(im,[0 max_level])
 I need help you. Thank you more much!
 My email id is:971183504[at]qq.com
Jessica Xian    9 Feb 2017    Hello,
 Would it be possible to send the coding to my email: zcqsjxi[at]ucl.ac.uk
 Thank you!
Mingyang Wang    23 Jun 2017    Hello, currently studying this video as a part of a research project, Could you please send me the code you used in your video?
 happymingyang[at]*.com
Henry Ortega    10 Dec 2016    Hello, I am not sure how this comment section works, but could you send me this code about segmentation? Thank you in advance.
Xinzhou    14 Feb 2015    Hello, I am student learning medical image processing by applying matlab. When I use the function "threshold_tool' in this folder. It shows function 'vline' not defined. Is there any way can solve this problem. Thank you so much.
Sae Bom Lee    6 Dec 2016    Hello, I need this code for my project.
 Can you send me this code about MRI Brain segment?
 Please send email me.
Kaveh Laksari    29 Jan 2018    Hello, is there a way to download the .m files? Thanks
Elliott Fullerton    5 Jun 2017    Hello, Looking into MRI as part of a PhD project. Could you please send me your code from the video. e.fullerton[at]lboro.ac.uk
 Kind Regards
 Elliott
Lenin Pañi Panama    2 Jul 2018    hello, send me code to email, please
 thanks
 leninr.panip[at]ucuenca.edu.ec
gizem tak    29 Mar 2018    hey there hello
 Is there anyone that can help for mr brain extraction for tumor with watershed algorthm segmentation in matlab please
Tal Goldfryd    28 Dec 2017    Hi
 Can you please sende the code to my email. It will be very helpful or my project
 talgold9[at]*.com
 Thanks alot
Hong Shan Lim    16 Oct 2016    Hi Sir, can you email me the code for my project reference? Email to hslim013[at]unisim.edu.sg
reham targam    27 Mar 2017    Hi Sir, can you email me the code for my project reference? Email to reham.targam[at]*.com
Shujin Zhu    10 May 2017    Hi sir, this case seems useful to me, it will be great if you could share the code with me s66zhu[at]uwaterloo.ca . Much appreciated!
xu shuai    2 Jul 2017    Hi sir，I am a graduate of the Department of Mathematics at Shanghai University ，I am learning medical image segmentation using Matlab. could you please send me your code my e-mail is Xs_222222[at]shu.edu.cn
divya sirigineedi    11 Jul 2017    hi sir,iam graduate of the department of ECE at RGUKT nuzvid, i want to do project based on brain tumour segementation using MRI images .so i want code for that .will u plz send it to my mail.i will be thankfull to u sir
abang mohd    19 Feb 2018    Hi there, Can you please send me the code for my research references. Your cooperation is highly appreciated. You can send the example through my email. abganaqi2[at]*.com
Sruthi Saradha Srinivasan    11 Dec 2017    Hi! It would be really helpful for my project if you could email me the code for reference : sruthisrinivasan94[at]*.com .
 Thanks !
Akash Gupta    23 Apr 2018    Hi,
Jash Bhayani    8 Dec 2016    Hi, Could you please email the code for the same? Thanks!
 email id: jashbhayani18[at]*.com
Jash Bhayani    8 Dec 2016    Hi, Could you please email the for the same? Thanks!
 email id: jashbhayani18[at]*.com
Srinivas Saripalle    9 May 2017    Hi, I am learning medical image segmentation using Matlab. Can you please send the package of the project. My email is: ssaripalle[at]*.com
Courtney Nelson    11 Apr 2017    Hi, I'm a biomedical engineering student at The Catholic University of America and I'm working on a project to analyze the gray versus white matter. could you please email me codes or advice to 83nelson[at]cua.edu
Tony Kong    7 May 2017    Hi, I'm a computer science master student at Northeastern University. Could you please send me the package of the project? My email is kong.zhe[at]husky.neu.edu Thank you very much
Lorenzo Valente    5 Apr 2017    Hi, I'm a computer science student of the 'University of Salerno and I'm writing a thesis on the MRI images. Could you please send me the whole package of the project?
 
 Thank you!
 email: valentelorenzo[at]live.it
Ashlyn Aiello    28 Jun 2017    Hi. Would it be possible to get the code you used in the video? I'm working on a project at BU that uses similar analysis of large series of medical images. Thanks.
 ajma[at]bu.edu
EWERTON PACHECO DE SOUZA    16 Feb 2018    Hi... it´s a helluva tool. Can you please send me the code? Thank you very much.
manoj    28 Oct 2011    high to all........actually i am beginner in image segmentation could anybody help me
haribabu    30 Oct 2013    how to download this package..
 please help me...
Aliatabassum Abdulsalam    15 Mar 2017    How to extract tumor after fuzzy c-mean segmentation applied on MRI brain images
Preeti    23 Nov 2009    i am getting the error in imtool and not able to remove even downloading the patch as advised. please help.
Feten    19 Dec 2015    I am using matlab on Linux.
Mahsa Tajdari    1 Aug 2018    I appreciate if you send me the code at mahsa.tajdari91[at]*.com
Shawn Wu    19 Jul 2018    I appreciate if you send me the code.--shengywu58[at]*.com
mehak aggarwal    14 Aug 2018    I appreciate it if you send me the code to mehakaggarwal106[at]roocketmail.com
Yair Goldfarb    10 Aug 2018    I appreciate it if you send me the code to yairgold[at]*.com, thanks and all the best.
naila    20 Apr 2013    I couldn't able to download the code. please can any one help me?
mima zebouchi    15 Apr 2016    i wont to segmentation of whitematter and gray matter
Maria Kline    4 May 2016    I would like to do something similar, except with a knee MRI, very fascinated by this could you please send me it at maria.kline[at]*.com
Edgar Villagran    27 Jun 2017    I would like too much to receive the code you use in the video. I want to use it for teaching purposes in Biomedical Engineering and of course the citations and aknowledgmnts to you all the time will be provided. villagran.e[at]*.com
wu w    7 Mar 2017    if it is possible could you please send me your code my e-mail is : wemx50029[at]*.com.tw
Elif Akcay    1 Mar 2017    if it si possible could you please send me your code my e-mail is : eliftugbaakcay[at]*.com
Fatemeh    8 Dec 2013    If you want to download this useful package, click on download submission button, http://www.mathworks.com/matlabcentral/fx_files/4879/6/MRI_Brain_Scan.zip
elise lau    4 Apr 2012    I'm new to matlab, doing segmentation of brain tumor from 2D MRI images for my project. anyone have the coding? can help me?thx very much..
Soo Jong Kim    23 Nov 2016    In Medical Image Processing with MATLAB
 Can you send me his code in that lecture?
 please I need it..
 My email is ksj9108[at]naver.com
porngamol sitlaothaworn    21 Aug 2011    it helps me in senior project :)
Feten    19 Dec 2015    It's OK the problem is fixed. After mading modification described on
 I restart the matlab and it 's working.
Nurhasanah Ivansyah    2 Nov 2010    it's very good tutorial. Very good coding for matlap brain image processing.
 but can you help how to segmenting brain white matter, gray matter and cerebrospinal fluid. if you have algoritm or code in matlab, help give me.
 i really need....
SIVA    23 Jul 2013    its very use ful ,,,.
Tawhidur Rahman    10 Sep 2017    just running the project in matlab will be enough to get pass with project ?everyone ?
prathibha g    18 Aug 2018    kindly send me the code to drgururajahebbar[at]*.com
Yameng Liu    24 Oct 2016    My email is yameng.liu[at]duke.edu
hmmmmm    5 Apr 2016    my project is brain MRI segmentation and 3D reconstruction ...
 can you please send to me segmentation code in this address zameerabbas72[at]*.com
mima zebouchi    24 Feb 2016    my project is brain tumor detection.
 Can you please send to me the segmentation code in this addresse :
 mimazebouchi[at]*.com
Preeti Sharma    14 Jan 2017    need coding on image segmentation
Hai Nguyen    25 Jan 2017    need coding on image segmentation
 Email: thanhhai7486[at]*.com
 Thanks very much
swarada kanap    21 Mar 2017    need coding on image segmentation and morphological operators on brain tumor images
 yash.hajare29[at]*.com
Sathyathas Puvanasunthararajah    2 Dec 2017    Please Could you mail me the MATLAB code for brain segmentation using MRI image to pthas88[at]*.com
Yong Min Lee    10 May 2018    Please help!!!!!
 adsqz12[at]naver.com
NAEEM LATHEEF 15BMD0068    5 Feb 2018    Please send me the code to my email please. Thanks.
 naeemlatheef619[at]*.com
yuvaranjini    21 Mar 2012    Really good work sir. It would be nice if you add some description to the code.
 It helps me a lot
Robert Bemis    1 Dec 2009    See also
 >> doc imview
SHIVA SHANTHI NAREDDY    29 Apr 2018    shivanichinni1997[at]*.com
sp 2013    17 Oct 2014    Sir i'm a student and my project is mild brain injury detection
 Can you please send to me the segmentation code in this addresse : adish321309[at]*.com
sp 2013    17 Oct 2014    sir, iam a PG student doing project on the mild brain injury detection.Will you please help me to get the database(t2 weighted mri of mild brain injured images) for the same . My mail id is adish321309[at]*.com
Aysha    9 Dec 2013    sir, iam a PG student doing project on the mri brain tumor segmentation.Will you please help me to get the database(mri tumor brain dicom images) for the same . My mail id is jasaem.21[at]*.com
majid SHOKRI    16 Apr 2014    sir, iam a PG student doing project on the mri brain tumor segmentation.Will you please help me to get the database(mri tumor brain dicom images) for the same . My mail id is majidshokri_boj[at]*.com
shabaz khan    13 Dec 2016    sir, iam a PG student doing project on the mri brain white matter segmentation.Will you please help me to get the database for the same . My mail id is shabazkhanbme15[at]*.com
sp 2013    20 Oct 2014    Sir, pls give me the matlab code for whitematter sementation from mr images my mail id is :adish321309[at]*.com
shruti    25 Jan 2015    Sir,I am searching for segmentation of gray matter from T1 weigheted brain MR images.Can u plz send me the code to this address.
 My id:shruti.gubbi77[at]*.com
sp 2013    17 Oct 2014    Sir,I am searching for segmenting white matter from a T2 weighted brain MRI scan. But I could not get the correct tutorial to follow it. Please suggest me an algorithm that works better and accurately to segment the gray matter alone from the T2 wieghted MRI scan image my mail id is:adish321309[at]*.com
mima zebouchi    13 Mar 2016    sr i have a problem:?? Error using ==> lt
 Matrix dimensions must agree.
Muhammad Usman    17 Jan 2018    this is very helpful please send be code to my email
merve acar    23 Dec 2015    Thnak you Sir for the nice work !
  my project is brain tumor detection.
 Can you please send to me the segmentation code in this addresse : merve.acar[at]atauni.edu.tr
 
 thnak you in advance !
 Regards
redouan pitrochka    16 Apr 2014    Thnak you Sir for the nice work !
 Please i'm a student and my project is brain tumor detection.
 Can you please send to me the segmentation code in this addresse : redouan_lahmyed[at]live.fr
 thnak you in advance !
 Regards
sdh32    21 Apr 2015    Undefined function 'vline' for input arguments of type 'double'.
 Error in thresh_tool (line 90)
 h_lev = vline(my_level,'-');
iza    21 Apr 2015    Undefined function 'vline' for input arguments of type 'double'.
 Error in thresh_tool (line 90)
 h_lev = vline(my_level,'-');
Adnan    26 Sep 2016    Will you please send me the code for study purpose?
sheldon    26 Jun 2009    your work is good. it is helping me a lot. but i am facing a small problem if i give input(dcm files) of larger size like 138 kb other than that you used is 129 kb. please help me out with this. i am using matlab r2008a. i get the error;