[ITK-users] [ITK] using MHA file to store additional information about image

[Andras Lasso]

Yes, Plus toolkit has been using mha and nrrd files for many years to store tracked ultrasound data in a single file. Recently we use nrrd format more, as this format supports 3D+t image sequences more cleanly. At the beginning, we used ITK’s reader/writer, but metadata handling was not fast enough and we also needed dynamic header construction and memory-cached compressed streaming image I/O. We are now also adding support for lossy video codecs as non-standard extensions.

Plus can reconstruct volumes from tracked ultrasound slices, connect to many ultrasound devices through native interfaces, connect to most optical and electromagnetic trackers, stream tracked ultrasound data through OpenIGTLink for real-time visualization to various applications, perform spatial and temporal calibrations, etc. Check out www.plustoolkit.org<http://www.plustoolkit.org> and www.slicerigt.org<http://www.slicerigt.org> for details. There is a resident Plus expert at Robarts, Adam Rankin, you can contact him if you need more information, and we’ll have a one-week hackathon at Robarts in July where you can meet several experienced Plus and SlicerIGT users and developers (https://na-mic.github.io/ProjectWeek/PW29_2018_London_Canada/).

Andras

From: Community <community-bounces at itk.org> On Behalf Of Dženan Zukic
Sent: Wednesday, May 30, 2018 4:26 PM
To: Andrew Harris <aharr8 at uwo.ca>
Cc: Insight-users <insight-users at itk.org>
Subject: Re: [ITK] [ITK-users] using MHA file to store additional information about image

Hi Andrew,

you can add content to image's MetaData dictionary. But you should look at how Plus does it (code<https://na01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2FPlusToolkit%2FPlusLib%2Fblob%2Fmaster%2Fsrc%2FPlusCommon%2FIO%2FvtkPlusMetaImageSequenceIO.cxx&data=02%7C01%7Classo%40queensu.ca%7C5a34db5cc49149f2b77b08d5c66b8a59%7Cd61ecb3b38b142d582c4efb2838b925c%7C1%7C0%7C636633087559034726&sdata=9JCBbDgxqHogvLhKlhy8Vnk1SkRhFbgJFck%2Fy77KtEg%3D&reserved=0>, docs<https://na01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fperk-software.cs.queensu.ca%2Fplus%2Fdoc%2Fnightly%2Fdev%2FvtkPlusMetaImageSequenceIO_8h.html&data=02%7C01%7Classo%40queensu.ca%7C5a34db5cc49149f2b77b08d5c66b8a59%7Cd61ecb3b38b142d582c4efb2838b925c%7C1%7C0%7C636633087559034726&sdata=NtNk%2Ftz712R0RIsO8YXlff2ds16C%2BVpZtgZpKWiCu3k%3D&reserved=0>). You might be able to use it directly.

Regards,
Dženan

On Wed, May 30, 2018 at 2:53 PM Andrew Harris <aharr8 at uwo.ca<mailto:aharr8 at uwo.ca>> wrote:
Hello, I was wondering if it is possible to store additional information about an image as part of an MHA file.  Specifically, we are capturing ultrasound using an arm that has encoders attached that report position in space, and I'd like to be able to include that information in the MHA file rather than keeping a separate record. Thanks in advance for the help.

--

AH



Andrew Harris, BSc with Honours (Medical Physics)

PhD (CAMPEP) & MClSc Candidate

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