No subject
Wed May 9 12:08:04 EDT 2012
to the ImageFileWriter and it writes it to the disk.
The image could be the mask, could be the
original image, could be an image with two channels
with the first channel being the original image, and
the second channel being the mask.
Cheers,
Cagatay
On Mon, Aug 13, 2012 at 4:42 AM, criskross <christianherz1985 at googlemail.com
> wrote:
>
> Hi,
>
> what I even didn't understand is how to save for example a transformation
> or
> windowing as a file which describes even the process to get the resulting
> image. Do you unterstand what I would like to get?
>
> Example: I am a physician and I would like to mark a tumor within image
> data
> of a brain. I don't want to change the original image data but I would
> like
> to save a description of how to segment the image for displaying the tumor.
>
> I even did not find any information about this topic within the itk guide.
>
> Could someone please help me?`
>
> I would be deeply grateful.
>
> Christian
>
>
> cagatay bilgin-2 wrote:
> >
> > Hi Criskross,
> >
> >
> > You can save your image as a tiff file.
> >
> > mhd files are not special files to save
> >
> > segmentation. In fact they are just binary
> >
> > images. Here is an example on how you
> >
> > can save your segmentated image as tiff.
> >
> >
> > typedef itk::ImageFileWriter< ImageType > WriterType;
> > WriterType::Pointer writer = WriterType::New();
> > writer->SetFileName("out.tif");
> > writer->SetInput(segmentedImage);
> > writer->Update();
> >
> >
> > Cheers,
> > Cagatay
> >
> > On Tue, Aug 7, 2012 at 2:02 AM, criskross
> > <christianherz1985 at googlemail.com>wrote:
> >
> >>
> >> Ok now I have an overview of chapter 9 but I can't find any explanation
> >> how
> >> to save segmentation data as a metafile or somesthing else. Is there any
> >> documentation which describes all fileformats?
> >>
> >>
> >>
> >> --
> >> View this message in context:
> >> http://old.nabble.com/Segmentation-data-tp34261943p34265128.html
> >> Sent from the ITK - Users mailing list archive at Nabble.com.
> >>
> >> _____________________________________
> >> Powered by www.kitware.com
> >>
> >> Visit other Kitware open-source projects at
> >> http://www.kitware.com/opensource/opensource.html
> >>
> >> Kitware offers ITK Training Courses, for more information visit:
> >> http://www.kitware.com/products/protraining.php
> >>
> >> Please keep messages on-topic and check the ITK FAQ at:
> >> http://www.itk.org/Wiki/ITK_FAQ
> >>
> >> Follow this link to subscribe/unsubscribe:
> >> http://www.itk.org/mailman/listinfo/insight-users
> >>
> >
> > _____________________________________
> > Powered by www.kitware.com
> >
> > Visit other Kitware open-source projects at
> > http://www.kitware.com/opensource/opensource.html
> >
> > Kitware offers ITK Training Courses, for more information visit:
> > http://www.kitware.com/products/protraining.php
> >
> > Please keep messages on-topic and check the ITK FAQ at:
> > http://www.itk.org/Wiki/ITK_FAQ
> >
> > Follow this link to subscribe/unsubscribe:
> > http://www.itk.org/mailman/listinfo/insight-users
> >
> >
> --
> View this message in context:
> http://old.nabble.com/Segmentation-data-tp34261943p34290219.html
> Sent from the ITK - Users mailing list archive at Nabble.com.
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
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--047d7b2ee3fdf0e5bb04c73e03e9
Content-Type: text/html; charset=ISO-8859-1
Content-Transfer-Encoding: quoted-printable
If I am understanding your question correctly,=A0<div>you want to create a =
mask for your manual=A0</div><div>segmentation, overlayed on the=A0original=
image,=A0</div><div>and save this mask separately=A0without changing=A0</d=
iv><div>the original image. This is=A0more of a user interface=A0</div>
<div>issue and ITK-SNAP provides=A0means to do this for you.=A0</div><div><=
a href=3D"http://www.itksnap.org/pmwiki/pmwiki.php">http://www.itksnap.org/=
pmwiki/pmwiki.php</a><br><br>From ITK's perspective, you provide an ima=
ge=A0</div>
<div>to the ImageFileWriter and it writes it to the disk.=A0</div><div>The =
image could be the mask, could be the=A0</div><div>original image, could be=
an image with two channels=A0</div><div>with the first channel being the o=
riginal image, and=A0</div>
<div>the second channel being the mask.=A0</div><div><br></div><div>Cheers,=
=A0</div><div>Cagatay</div><div><br><div class=3D"gmail_quote">On Mon, Aug =
13, 2012 at 4:42 AM, criskross <span dir=3D"ltr"><<a href=3D"mailto:chri=
stianherz1985 at googlemail.com" target=3D"_blank">christianherz1985 at googlemai=
l.com</a>></span> wrote:<br>
<blockquote class=3D"gmail_quote" style=3D"margin:0 0 0 .8ex;border-left:1p=
x #ccc solid;padding-left:1ex"><br>
Hi,<br>
<br>
what I even didn't understand is how to save for example a transformati=
on or<br>
windowing as a file which describes even the process to get the resulting<b=
r>
image. Do you unterstand what I would like to get?<br>
<br>
Example: I am a physician and I would like to mark a tumor within image dat=
a<br>
of a brain. =A0I don't want to change the original image data but I wou=
ld like<br>
to save a description of how to segment the image for displaying the tumor.=
<br>
<br>
I even did not find any information about this topic within the itk guide.<=
br>
<br>
Could someone please help me?`<br>
<br>
I would be deeply grateful.<br>
<br>
Christian<br>
<br>
<br>
cagatay bilgin-2 wrote:<br>
><br>
> Hi Criskross,<br>
><br>
><br>
> You can save your image as a tiff file.<br>
><br>
> mhd files are not special files to save<br>
><br>
> segmentation. In fact they are just binary<br>
><br>
> images. Here is an example on how you<br>
><br>
> can save your segmentated image as tiff.<br>
><br>
><br>
> =A0 typedef =A0itk::ImageFileWriter< ImageType =A0> WriterType;<=
br>
> =A0 WriterType::Pointer writer =3D WriterType::New();<br>
> =A0 writer->SetFileName("out.tif");<br>
> =A0 writer->SetInput(segmentedImage);<br>
> =A0 writer->Update();<br>
><br>
><br>
> Cheers,<br>
> Cagatay<br>
><br>
> On Tue, Aug 7, 2012 at 2:02 AM, criskross<br>
> <<a href=3D"mailto:christianherz1985 at googlemail.com">christianherz1=
985 at googlemail.com</a>>wrote:<br>
><br>
>><br>
>> Ok now I have an overview of chapter 9 but I can't find any ex=
planation<br>
>> how<br>
>> to save segmentation data as a metafile or somesthing else. Is the=
re any<br>
>> documentation which describes all fileformats?<br>
>><br>
>><br>
>><br>
>> --<br>
>> View this message in context:<br>
>> <a href=3D"http://old.nabble.com/Segmentation-data-tp34261943p3426=
5128.html" target=3D"_blank">http://old.nabble.com/Segmentation-data-tp3426=
1943p34265128.html</a><br>
>> Sent from the ITK - Users mailing list archive at Nabble.com.<br>
>><br>
>> _____________________________________<br>
>> Powered by <a href=3D"http://www.kitware.com" target=3D"_blank">ww=
w.kitware.com</a><br>
>><br>
>> Visit other Kitware open-source projects at<br>
>> <a href=3D"http://www.kitware.com/opensource/opensource.html" targ=
et=3D"_blank">http://www.kitware.com/opensource/opensource.html</a><br>
>><br>
>> Kitware offers ITK Training Courses, for more information visit:<b=
r>
>> <a href=3D"http://www.kitware.com/products/protraining.php" target=
=3D"_blank">http://www.kitware.com/products/protraining.php</a><br>
>><br>
>> Please keep messages on-topic and check the ITK FAQ at:<br>
>> <a href=3D"http://www.itk.org/Wiki/ITK_FAQ" target=3D"_blank">http=
://www.itk.org/Wiki/ITK_FAQ</a><br>
>><br>
>> Follow this link to subscribe/unsubscribe:<br>
>> <a href=3D"http://www.itk.org/mailman/listinfo/insight-users" targ=
et=3D"_blank">http://www.itk.org/mailman/listinfo/insight-users</a><br>
>><br>
><br>
> _____________________________________<br>
> Powered by <a href=3D"http://www.kitware.com" target=3D"_blank">www.ki=
tware.com</a><br>
><br>
> Visit other Kitware open-source projects at<br>
> <a href=3D"http://www.kitware.com/opensource/opensource.html" target=
=3D"_blank">http://www.kitware.com/opensource/opensource.html</a><br>
><br>
> Kitware offers ITK Training Courses, for more information visit:<br>
> <a href=3D"http://www.kitware.com/products/protraining.php" target=3D"=
_blank">http://www.kitware.com/products/protraining.php</a><br>
><br>
> Please keep messages on-topic and check the ITK FAQ at:<br>
> <a href=3D"http://www.itk.org/Wiki/ITK_FAQ" target=3D"_blank">http://w=
ww.itk.org/Wiki/ITK_FAQ</a><br>
><br>
> Follow this link to subscribe/unsubscribe:<br>
> <a href=3D"http://www.itk.org/mailman/listinfo/insight-users" target=
=3D"_blank">http://www.itk.org/mailman/listinfo/insight-users</a><br>
><br>
><br>
--<br>
View this message in context: <a href=3D"http://old.nabble.com/Segmentation=
-data-tp34261943p34290219.html" target=3D"_blank">http://old.nabble.com/Seg=
mentation-data-tp34261943p34290219.html</a><br>
Sent from the ITK - Users mailing list archive at Nabble.com.<br>
<br>
_____________________________________<br>
Powered by <a href=3D"http://www.kitware.com" target=3D"_blank">www.kitware=
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Visit other Kitware open-source projects at<br>
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Kitware offers ITK Training Courses, for more information visit:<br>
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k">http://www.kitware.com/products/protraining.php</a><br>
<br>
Please keep messages on-topic and check the ITK FAQ at:<br>
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</blockquote></div><br></div>
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