Dicom image -

[Bob Goodwin]

Is there a Linux application that will display a dicom image file?

Bob

[Nathan Schwarz]

`sudo yum search DICOM`
https://www.google.com/?#q=dicom+linux+viewer

Sorry for being a smartass.
Looks like aeskulap is what you're searching for.

[Bob Goodwin]

On 08/26/14 16:09, Nathan Schwarz wrote:
> `sudo yum search DICOM`
> https://www.google.com/?#q=dicom+linux+viewer
>
> Sorry for being a smartass.
> Looks like aeskulap is what you're searching for.

No, I might deserve that. Yumex already found and installed it by the 
time I received your e-mail. Now I will have to find instructions on how 
to use it since it allows me to select a file but isn't displaying anything?

Sorry for raising the noise level here.

Thanks,

Bob

[Roger Heflin]

I had to go find the CD I had with dicom files on it.

I was not able to get anything selecting the diacomdir file...I had to
go into dicom dir and go down to where there were real files (select
show all files) and then was able to display the image by selecting
each image that was in several different dirs.

On Tue, Aug 26, 2014 at 3:29 PM, Bob Goodwin - Zuni, Virginia, USA
 wrote:
> On 08/26/14 16:09, Nathan Schwarz wrote:
> > `sudo yum search DICOM`
> > https://www.google.com/?#q=dicom+linux+viewer
> >
> > Sorry for being a smartass.
> > Looks like aeskulap is what you're searching for.
>
> No, I might deserve that. Yumex already found and installed it by the time I
> received your e-mail. Now I will have to find instructions on how to use it
> since it allows me to select a file but isn't displaying anything?
>
> Sorry for raising the noise level here.
>
> Thanks,
>
> Bob
>
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[poma]

On 27.08.2014 01:33, Roger Heflin wrote:
> I had to go find the CD I had with dicom files on it.
>
> I was not able to get anything selecting the diacomdir file...I had to
> go into dicom dir and go down to where there were real files (select
> show all files) and then was able to display the image by selecting
> each image that was in several different dirs.

wine -> RadiAnt -> DICOMDIR
~/.wine
$ man 1 wine

poma

[Bob Goodwin]

On 08/26/14 19:33, Roger Heflin wrote:
> I had to go find the CD I had with dicom files on it.
>
> I was not able to get anything selecting the diacomdir file...I had to
> go into dicom dir and go down to where there were real files (select
> show all files) and then was able to display the image by selecting
> each image that was in several different dirs.

I find the best way for me to view the images is to view the list of 
image files in the file manager [Thunar], select the one I want and then 
open it using aeskulap. Then "clicking" on the image brings up the 
start/stop button for display of the live video action.

I looked at the other applications suggested but found none of those 
available via yum and since aeskulap seems to work well and did what I 
needed that's as far as I got so far ...

Thank you,

Bob

[Ian Malone]

On 28 August 2014 09:34, Bob Goodwin - Zuni, Virginia, USA
 wrote:
> On 08/26/14 19:33, Roger Heflin wrote:
> > I had to go find the CD I had with dicom files on it.
> >
> > I was not able to get anything selecting the diacomdir file...I had to
> > go into dicom dir and go down to where there were real files (select
> > show all files) and then was able to display the image by selecting
> > each image that was in several different dirs.

Yes, I think lots of stuff just ignores DICOMDIR and scans image files
directly, it's also not an image file itself (though it is another
type of DICOM file) and only used when images are on 'DICOM media'
(which I think amounts to tape or CD), so lots of viewers probably
aren't equipped to handle it. Some applications will let you specify a
directory to load as an alternative to individual files.
> I find the best way for me to view the images is to view the list of image
> files in the file manager [Thunar], select the one I want and then open it
> using aeskulap. Then "clicking" on the image brings up the start/stop button
> for display of the live video action.
>
> I looked at the other applications suggested but found none of those
> available via yum and since aeskulap seems to work well and did what I
> needed that's as far as I got so far ...

Cool, haven't used that one before, will have to check it out.

[Ian Malone]

On 26 August 2014 20:59, Bob Goodwin - Zuni, Virginia, USA
 wrote:
> Is there a Linux application that will display a dicom image file?
>
> Bob

Yes, though there are more that will display other formats that you
can generate from DICOM. Many DICOM files are single slices/images of
a series. Others are
MRIcron http://www.mccauslandcenter.sc.edu/mricro/mricron/
- includes viewer for NIfTI files (.nii/.nii.gz) and converter
dcm2nii. For most uses I'd give it arguments of -r n -x n along with
whatever naming arguments are needed. N.B. slightly odd usage in that
all -? arguments must come before the directory to be converted.

MCverter http://lcni.uoregon.edu/~jolinda/MRIConvert/ another
converter application

http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/Licence Includes the viewer
FSLview which will read NIfTI. Lots of other neuroimaging tools
included. Not Open Source, but source provided and free for
non-commercial use.

http://imagej.nih.gov/ij/ Java based viewer, plugin based. Not great
for neuroimaging, but will load NIfTI and I think there are DICOM
plugins too.

http://www.brain.org.au/software/mrtrix/ MRtrix, aimed at diffusion
imaging, but includes DICOM converter and viewer.

There's also SPM, but only if you have access to Matlab.

[Bob Goodwin]

On 08/27/14 03:51, Ian Malone wrote:
> On 26 August 2014 20:59, Bob Goodwin - Zuni, Virginia, USA
>   wrote:
> > > Is there a Linux application that will display a dicom image file?
> > >
> > > Bob
>
> Yes, though there are more that will display other formats that you
> can generate from DICOM. Many DICOM files are single slices/images of
> a series. Others are
> MRIcronhttp://www.mccauslandcenter.sc.edu/mricro/mricron/
> includes viewer for NIfTI files (.nii/.nii.gz) and converter
>
> dcm2nii. For most uses I'd give it arguments of -r n -x n along with
> whatever naming arguments are needed. N.B. slightly odd usage in that
> all -? arguments must come before the directory to be converted.
>
> MCverterhttp://lcni.uoregon.edu/~jolinda/MRIConvert/  another
> converter application
>
> http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/Licence  Includes the viewer
> FSLview which will read NIfTI. Lots of other neuroimaging tools
> included. Not Open Source, but source provided and free for
> non-commercial use.
>
> http://imagej.nih.gov/ij/  Java based viewer, plugin based. Not great
> for neuroimaging, but will load NIfTI and I think there are DICOM
> plugins too.
>
> http://www.brain.org.au/software/mrtrix/  MRtrix, aimed at diffusion
> imaging, but includes DICOM converter and viewer.
>
> There's also SPM, but only if you have access to Matlab.

Thanks to all who responded to my query. I probably should have looked 
harder before asking but the responses are all helpful.

I yum installed "aeskulap" which works but it's operation does not seem 
very intuitive to me. I have had more success displaying the images 
after copying just the image files from the disc to my nfs server.

These are images of a heart catheterization I had done several weeks ago 
and display as video clips showing the injection of the radio opaque dye 
to outline the blood vessels, everything is moving as the heart beats, 
surprising detail, interesting to see ... Just received the disk 
yesterday and I need to play with it some more, perhaps try another 
viewer? This is a new thing for me and will take some time.

And yes, they did include a Windows viewer and I have a Windows VM 
somewhere but prefer not to mess with that if there is an Linux alternative.

Tnx,

Bob

[Ranjan Maitra]

On Wed, 27 Aug 2014 05:05:11 -0400 "Bob Goodwin - Zuni, Virginia, USA"
 wrote:
> On 08/27/14 03:51, Ian Malone wrote:
> > On 26 August 2014 20:59, Bob Goodwin - Zuni, Virginia, USA
> >   wrote:
> > > > Is there a Linux application that will display a dicom image file?
> > > >
> > > > Bob
> >
> > Yes, though there are more that will display other formats that you
> > can generate from DICOM. Many DICOM files are single slices/images of
> > a series. Others are
> > MRIcronhttp://www.mccauslandcenter.sc.edu/mricro/mricron/
> > includes viewer for NIfTI files (.nii/.nii.gz) and converter
> >
> > dcm2nii. For most uses I'd give it arguments of -r n -x n along with
> > whatever naming arguments are needed. N.B. slightly odd usage in that
> > all -? arguments must come before the directory to be converted.
> >
> > MCverterhttp://lcni.uoregon.edu/~jolinda/MRIConvert/  another
> > converter application
> >
> > http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/Licence  Includes the viewer
> > FSLview which will read NIfTI. Lots of other neuroimaging tools
> > included. Not Open Source, but source provided and free for
> > non-commercial use.
> >
> > http://imagej.nih.gov/ij/  Java based viewer, plugin based. Not great
> > for neuroimaging, but will load NIfTI and I think there are DICOM
> > plugins too.
> >
> > http://www.brain.org.au/software/mrtrix/  MRtrix, aimed at diffusion
> > imaging, but includes DICOM converter and viewer.
> >
> > There's also SPM, but only if you have access to Matlab.
>
> Thanks to all who responded to my query. I probably should have looked 
> harder before asking but the responses are all helpful.
>
> I yum installed "aeskulap" which works but it's operation does not seem 
> very intuitive to me. I have had more success displaying the images 
> after copying just the image files from the disc to my nfs server.
>
> These are images of a heart catheterization I had done several weeks ago 
> and display as video clips showing the injection of the radio opaque dye 
> to outline the blood vessels, everything is moving as the heart beats, 
> surprising detail, interesting to see ... Just received the disk 
> yesterday and I need to play with it some more, perhaps try another 
> viewer? This is a new thing for me and will take some time.
>
> And yes, they did include a Windows viewer and I have a Windows VM 
> somewhere but prefer not to mess with that if there is an Linux alternative.
>
> Tnx,
>
> Bob

Btw, R has a package called fmri which allows one to read in DICOM
files. Though I am not very clear if the goal is to watch a video or to
analyze the data. If the second, then R will be useful.

Many thanks.
Ranjan

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