[ITK-users] [ITK] Read 4D CT cardiac dicom series and save it as a single 4D nifti file

[Andras Lasso]

3D Slicer can load some 4D CTs a 3D+t sequence and you cab save it as a 4D nrrd. You may give it a try. If it doesn't work for your sequence then report the problem on the slicer-users mailing list. If you can provide a sample data set then slicer developers most likely will be able to make it work.

Andras

From: marco giordano<mailto:marco.giord at gmail.com>
Sent: June 10, 2016 17:32
To: Scapegoat Sarthak<mailto:scapegoat.sarthak at gmail.com>
Cc: insight-users at itk.org<mailto:insight-users at itk.org>
Subject: Re: [ITK] [ITK-users] Read 4D CT cardiac dicom series and save it as a single 4D nifti file

Hi there,

Thanks for the suggestions. VV is not really an option since I have to analyze many cases. I even tried to use VV but it gives me the wrong order of the slices.

I am trying the  "itk::ImageSeriesReader" (right?) but it is complaining that "Position is not unique".  I think it refers to the fact that the slices in my "series" have the "same location". Not sure this is meant to transform 2D into 4D if it expects different locations, maybe it is for 2D into 3D. Any idea?

Regards

2016-06-09 17:21 GMT+02:00 Scapegoat Sarthak <scapegoat.sarthak at gmail.com<mailto:scapegoat.sarthak at gmail.com>>:
You can do it pretty easily:

Read DICOM using SeriesFileReader and then connect output to a FileWriter with the file name of your choice (in this case, it would be "output.nii.gz").


On 9 June 2016 at 11:06, Mohammad Varasteh <varasteh at to.infn.it<mailto:varasteh at to.infn.it>> wrote:
Dear Marco,

Actually I do not know how to do it in the ITK but for such cases (if it is
few cases) I normally use "VV: the 4D slicer". You can find it in the
following link:

http://www.creatis.insa-lyon.fr/rio/vv

I hope this will be of some use.

Varasteh



--
View this message in context: http://itk-insight-users.2283740.n2.nabble.com/ITK-users-Read-4D-CT-cardiac-dicom-series-and-save-it-as-a-single-4D-nifti-file-tp7588962p7588963.html
Sent from the ITK Insight Users mailing list archive at Nabble.com.
_____________________________________
Powered by www.kitware.com<http://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://public.kitware.com/mailman/listinfo/insight-users


_____________________________________
Powered by www.kitware.com<http://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://public.kitware.com/mailman/listinfo/insight-users




--
Marco Giordano
SKYPE:marcogiord81
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://public.kitware.com/pipermail/insight-users/attachments/20160611/756289a2/attachment.html>