Re: [ITK-users] Picking corresponding anatomical points -- best software for a clinician?

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Re: [ITK-users] Picking corresponding anatomical points -- best software for a clinician?

Steve M. Robbins
Dear slicer-users: I originally asked a question in insight-users but it
touches on slicer, so I'm cross-posting.


On Sunday, December 4, 2016 7:04:06 PM CST Dženan Zukić wrote:
> Hi Steve,
>
> in 3DSlicer, pressing shift key (Windows, could be different on Mac) and
> moving mouse will select other 2 slices corresponding to mouse position.

Yes, but when I have two volumes displayed using Landmark Registration module,
the shift-mouse-move operation on axial updates the sagital and coronal of
BOTH volumes, not just the one I'm operating on.  This seems wrong to me when
the two volumes are not registered.

> Slicer can also save fiducial points list into a file (comma separated
> values format).

Yes, that is great.


>
> Regards,
> Dženan
>
> On Sun, Dec 4, 2016 at 1:43 PM, Steve M. Robbins <[hidden email]> wrote:
> > Hi,
> >
> > I have an urgent need to acquire some data to validate (medical) image
> > registration in a clinical context.  To that end, I plan to sit with
> > several
> > clinicians and have them identify salient points in two datasets that will
> > be
> > registered.  Then I plan to use the residual errors of these points after
> > registration -- e.g. the median distance -- as a quality metric.
> >
> > What I'm after right now is a really easy-to-use tool with which the
> > clinician
> > can pick the points.  So that one can judge the points are indeed
> > corresponding: my present thought is to have an MPR view of each image
> > volume
> > side-by-side; e.g. axial/sagittal/coronal of volume 1 on top of the same
> > slices of volume 2.  Or similar.  My main requirement is that a clinician
> > who
> > is familar with PACS viewers can learn to use it in a minute or so.
> >
> > The other requirement is that the point coordinates can be saved to a file
> > for
> > later analysis.  Despite posting to the ITK list: ITK is not a
> > requirement.
> >
> > My question, briefly, is: what software would you recommend for this
> > scenario?
> >
> > I have briefly looked at 3D Slicer, MITK, Amide, and RegistrationShop.  So
> > far,
> > 3D Slicer is the only one that I can even find the functionality I want --
> > using the LandmarkRegistration module.   I realize this next part may come
> > across as whining so let me say up front I mean no denigration of the many
> > fine
> > folks who put hard work into 3D Slicer!  If I were the one picking the
> > points,
> > I think the Landmark Registration of 3D Slicer would be fine.  However,
> > the
> > clinician will be driving and will typically have limited time and
> > patience --
> > so I want something reasonably familiar.   For example: in navigating
> > through
> > the stacks: I can use the scrool wheel or slider to choose a slice.  But
> > then
> > I have to manipulate all three slices to find a point.  In other software,
> > one
> > can grab the slice intersection lines and update the other two slices --
> > e.g.
> > move the coronal and sagittal to intersect a point of interest located on
> > the
> > axial.    I can turn on slice intersection lines, but it shows
> > intersections
> > for BOTH volumes, which I don't want as they are not registered.  And when
> > I
> > use SHIFT to drag around the lines, both volumes are updated.  I need to
> > do
> > one volume at a time.
> >
> > Maybe there is a way to tune the Slicer GUI to my needs?  Or maybe a more
> > appropriate module I have overlooked?
> >
> > For any thoughts: thanks in advance,
> > -Steve
> >
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