Isolate structures from image

The name of the pictureThe name of the pictureThe name of the pictureClash Royale CLAN TAG#URR8PPP











up vote
4
down vote

favorite












I have a medical brain image from which I'm trying to isolate the brain (the gray pixels) from the rest (black and white parts).



I'm looking for some functions that are best suited for this.



Thanks



enter image description here






image-processing







share|improve this question





















  • Something like DeleteSmallComponents@Dilation[Binarize[img, 0.4, 0.6], 1] perhaps.
    – C. E.
    1 hour ago














up vote
4
down vote

favorite












I have a medical brain image from which I'm trying to isolate the brain (the gray pixels) from the rest (black and white parts).



I'm looking for some functions that are best suited for this.



Thanks



enter image description here






image-processing







share|improve this question





















  • Something like DeleteSmallComponents@Dilation[Binarize[img, 0.4, 0.6], 1] perhaps.
    – C. E.
    1 hour ago












up vote
4
down vote

favorite









up vote
4
down vote

favorite











I have a medical brain image from which I'm trying to isolate the brain (the gray pixels) from the rest (black and white parts).



I'm looking for some functions that are best suited for this.



Thanks



enter image description here






image-processing







share|improve this question













I have a medical brain image from which I'm trying to isolate the brain (the gray pixels) from the rest (black and white parts).



I'm looking for some functions that are best suited for this.



Thanks



enter image description here






image-processing




image-processing






share|improve this question













share|improve this question











share|improve this question




share|improve this question










asked 1 hour ago









holistic

1,143620




1,143620











  • Something like DeleteSmallComponents@Dilation[Binarize[img, 0.4, 0.6], 1] perhaps.
    – C. E.
    1 hour ago
















  • Something like DeleteSmallComponents@Dilation[Binarize[img, 0.4, 0.6], 1] perhaps.
    – C. E.
    1 hour ago















Something like DeleteSmallComponents@Dilation[Binarize[img, 0.4, 0.6], 1] perhaps.
– C. E.
1 hour ago




Something like DeleteSmallComponents@Dilation[Binarize[img, 0.4, 0.6], 1] perhaps.
– C. E.
1 hour ago










1 Answer
1






active

oldest

votes

















up vote
4
down vote



accepted










This can actually be done quite gracefully. Since it seems like there's no full white within the brain itself, we replace all the White with Black, then use ImageCrop.



ImageCrop[DeleteSmallComponents@ColorReplace[i, White -> Black]]


You can use RemoveBackground as well if you don't want black in the background.



working example



older attempt



We use RemoveBackground with a marker in the centre of the image, then crop, delete small leftovers of the borders, crop again, and finally replace transparency with black.



RemoveAlphaChannel[
 ImageCrop[
 ColorNegate[
 DeleteSmallComponents[
 ColorNegate[
 ImageCrop[
 RemoveBackground[i, "Foreground", ImageDimensions[i]/2]]]]]], 
 RGBColor[0.`, 0.`, 0.`]]


working example



Or, since it seems like the image is relatively standard, you can just set given borders for the brain and crop to that every time.






share|improve this answer






















  • Thank you very much, that was easier than I thought :)
    – holistic
    1 hour ago










Your Answer




StackExchange.ifUsing("editor", function ()
return StackExchange.using("mathjaxEditing", function ()
StackExchange.MarkdownEditor.creationCallbacks.add(function (editor, postfix)
StackExchange.mathjaxEditing.prepareWmdForMathJax(editor, postfix, [["$", "$"], ["\\(","\\)"]]);
);
);
, "mathjax-editing");

StackExchange.ready(function()
var channelOptions =
tags: "".split(" "),
id: "387"
;
initTagRenderer("".split(" "), "".split(" "), channelOptions);

StackExchange.using("externalEditor", function()
// Have to fire editor after snippets, if snippets enabled
if (StackExchange.settings.snippets.snippetsEnabled)
StackExchange.using("snippets", function()
createEditor();
);

else
createEditor();

);

function createEditor()
StackExchange.prepareEditor(
heartbeatType: 'answer',
convertImagesToLinks: false,
noModals: false,
showLowRepImageUploadWarning: true,
reputationToPostImages: null,
bindNavPrevention: true,
postfix: "",
onDemand: true,
discardSelector: ".discard-answer"
,immediatelyShowMarkdownHelp:true
);



);













 

draft saved


draft discarded


















StackExchange.ready(
function ()
StackExchange.openid.initPostLogin('.new-post-login', 'https%3a%2f%2fmathematica.stackexchange.com%2fquestions%2f184234%2fisolate-structures-from-image%23new-answer', 'question_page');

);

Post as a guest

















1 Answer
1






active

oldest

votes








1 Answer
1






active

oldest

votes









active

oldest

votes






active

oldest

votes








up vote
4
down vote



accepted










This can actually be done quite gracefully. Since it seems like there's no full white within the brain itself, we replace all the White with Black, then use ImageCrop.



ImageCrop[DeleteSmallComponents@ColorReplace[i, White -> Black]]


You can use RemoveBackground as well if you don't want black in the background.



working example



older attempt



We use RemoveBackground with a marker in the centre of the image, then crop, delete small leftovers of the borders, crop again, and finally replace transparency with black.



RemoveAlphaChannel[
 ImageCrop[
 ColorNegate[
 DeleteSmallComponents[
 ColorNegate[
 ImageCrop[
 RemoveBackground[i, "Foreground", ImageDimensions[i]/2]]]]]], 
 RGBColor[0.`, 0.`, 0.`]]


working example



Or, since it seems like the image is relatively standard, you can just set given borders for the brain and crop to that every time.






share|improve this answer






















  • Thank you very much, that was easier than I thought :)
    – holistic
    1 hour ago














up vote
4
down vote



accepted










This can actually be done quite gracefully. Since it seems like there's no full white within the brain itself, we replace all the White with Black, then use ImageCrop.



ImageCrop[DeleteSmallComponents@ColorReplace[i, White -> Black]]


You can use RemoveBackground as well if you don't want black in the background.



working example



older attempt



We use RemoveBackground with a marker in the centre of the image, then crop, delete small leftovers of the borders, crop again, and finally replace transparency with black.



RemoveAlphaChannel[
 ImageCrop[
 ColorNegate[
 DeleteSmallComponents[
 ColorNegate[
 ImageCrop[
 RemoveBackground[i, "Foreground", ImageDimensions[i]/2]]]]]], 
 RGBColor[0.`, 0.`, 0.`]]


working example



Or, since it seems like the image is relatively standard, you can just set given borders for the brain and crop to that every time.






share|improve this answer






















  • Thank you very much, that was easier than I thought :)
    – holistic
    1 hour ago












up vote
4
down vote



accepted







up vote
4
down vote



accepted






This can actually be done quite gracefully. Since it seems like there's no full white within the brain itself, we replace all the White with Black, then use ImageCrop.



ImageCrop[DeleteSmallComponents@ColorReplace[i, White -> Black]]


You can use RemoveBackground as well if you don't want black in the background.



working example



older attempt



We use RemoveBackground with a marker in the centre of the image, then crop, delete small leftovers of the borders, crop again, and finally replace transparency with black.



RemoveAlphaChannel[
 ImageCrop[
 ColorNegate[
 DeleteSmallComponents[
 ColorNegate[
 ImageCrop[
 RemoveBackground[i, "Foreground", ImageDimensions[i]/2]]]]]], 
 RGBColor[0.`, 0.`, 0.`]]


working example



Or, since it seems like the image is relatively standard, you can just set given borders for the brain and crop to that every time.






share|improve this answer














This can actually be done quite gracefully. Since it seems like there's no full white within the brain itself, we replace all the White with Black, then use ImageCrop.



ImageCrop[DeleteSmallComponents@ColorReplace[i, White -> Black]]


You can use RemoveBackground as well if you don't want black in the background.



working example



older attempt



We use RemoveBackground with a marker in the centre of the image, then crop, delete small leftovers of the borders, crop again, and finally replace transparency with black.



RemoveAlphaChannel[
 ImageCrop[
 ColorNegate[
 DeleteSmallComponents[
 ColorNegate[
 ImageCrop[
 RemoveBackground[i, "Foreground", ImageDimensions[i]/2]]]]]], 
 RGBColor[0.`, 0.`, 0.`]]


working example



Or, since it seems like the image is relatively standard, you can just set given borders for the brain and crop to that every time.







share|improve this answer














share|improve this answer



share|improve this answer








edited 1 hour ago

























answered 1 hour ago









Carl Lange

1,313318




1,313318











  • Thank you very much, that was easier than I thought :)
    – holistic
    1 hour ago
















  • Thank you very much, that was easier than I thought :)
    – holistic
    1 hour ago















Thank you very much, that was easier than I thought :)
– holistic
1 hour ago




Thank you very much, that was easier than I thought :)
– holistic
1 hour ago

















 

draft saved


draft discarded















































 


draft saved


draft discarded














StackExchange.ready(
function ()
StackExchange.openid.initPostLogin('.new-post-login', 'https%3a%2f%2fmathematica.stackexchange.com%2fquestions%2f184234%2fisolate-structures-from-image%23new-answer', 'question_page');

);

Post as a guest
































































-

Popular posts from this blog

How to check contact read email or not when send email to Individual?

Image
Clash Royale CLAN TAG #URR8PPP up vote 1 down vote favorite I'm using WordPress 4.9.8, CiviCRM to 5.5.1, I usually send email to contact by Search> Find contacts View contact details Action> Send email Send email ok, Contact received mail ok like picture But status only Email sent though contact read email or not. So, can CiviCRM can change status to Email read when contact read email? wordpress email share | improve this question asked Sep 26 at 0:12 ToanLuong 49 9 add a comment  |  up vote 1 down vote favorite I'm using WordPress 4.9.8, CiviCRM to 5.5.1, I usually send email to contact by Search> Find contacts View contact details Action> Send email Send email ok, Contact received mail ok like picture But status only Email sent though contact read email or not. So, can CiviCRM can change status to Email read when contact read email? wordpress email share | improve this questi...
Read more

Displaying single band from multi-band raster using QGIS

Image
Clash Royale CLAN TAG #URR8PPP 1 How can I extract a single band from multi-band raster in QGIS? I have an remote sensed image which has 6 bands (including NDVI band), I want to display each band separately, but have no idea how to do. I have seen some questions similar here but none worked for me. The original image (has 6 bands) is: I want to display the band 6 which should be like this: But I tried gdal_translate, and couldn't get the correct result. What I have got is: qgis raster multi-band share | improve this question edited Mar 5 at 0:53 Summer asked Mar 4 at 6:42 Summer Summer 23 6 Is this any help gis.stackexchange.com/questions/220658/… ? if not gis.stackexchange.com/questions/62133/… might help. – Michael Stimson Mar 4 at 6:46 Thanks for answering but when I used gdal_translate, qgis showed that 'Error 4: Kayena.tif: No such file or directory". Would you know how to fi...
Read more

How many registers does an x86_64 CPU actually have?

Image
Clash Royale CLAN TAG #URR8PPP up vote 2 down vote favorite I am currently learning reverse engineering and am studying the flags register. I had in my mind that rflags was just another name for one of the 16 general purpose registers, for example rax or rbx . But it looks like rflags is actually an additional register. So that makes 17 registers in total... how many more could there be? I have spent at least an hour on this and found numerous different answers. The best answer so far is this, which says that there are 40 registers in total. 16 General Purpose Registers 2 Status Registers 6 Code Segment Registers 16 SSE Registers 8 FPU/MMX Registers But if I add that up, I get 48. Could anybody provide an official answer on how many registers an x86_64 CPU has (e.g. an Intel i7). Additionally, I have seen references to 'hardware' and 'architectural' registers. What are those registers and how many are there? register x86-64 share | improve this...
Read more