[Insight-users] Accessing ITK from R

[Brandon Whitcher]

Richard,

Interesting the number of people who have created NIfTI I/O capabilities in
R.  I have a couple versions of my own.  I also run the Medical_Imaging task
view on CRAN (cran.r-project.org).  A recent addition to the MI code base is
someone who has linked R to the cniftilib library from the NIfTI-1 project.
I haven't used it much yet, but it would be interesting to compare the
advantages of native-R versus outside-C implementations of I/O for medical
imaging.

Brandon

2009/7/31 Richard Beare <richard.beare at gmail.com>

> The integration with R mentioned there looks pretty minor -
> transforming data into an R readable format. If all you are after is a
> way of reading nifti files in R then there are a few options
> available. There is a package on cran that does it, but is broken for
> big files. I've written a pure R interface that uses the internal IO
> commands, so no C to compile and it works with big files. It is
> extremely basic but anyone who wants it is welcome.
>
> On Fri, Jul 31, 2009 at 7:08 AM, Don Bigler<dcb210 at psu.edu> wrote:
> > Badri,
> >   Actually, an Insight Journal article (http://hdl.handle.net/10380/3113
> )
> > was just submitted that describes an integration of R with image data.
> >  Check it out for more details.
> > Don
> >
> > Badri Roysam wrote:
> >>
> >> I am curious as to what form such an integration would take. Are we
> >> talking about wrapping?
> >>
> >> Badri Roysam
> >> Rensselaer Polytechnic Institute
> >> Troy, NY 12180, USA.
> >> email: Roysam at ecse.rpi.edu, office: 518-276-8067.
> >>
> >> On Jul 29, 2009, at 5:43 PM, "Don Bigler"<dcb210 at psu.edu> wrote:
> >>
> >>> Brandon,
> >>>  I believe integration of ITK with open-source statistical packages
> like
> >>> R is a worthy endeavor.  I've toyed with the idea myself for some time,
> but
> >>> I have not had the time to implement a solution.  Perhaps the best way
> to
> >>> implement and disseminate something like this is through the Insight
> >>> Journal.  Regardless, keep me posted as to any further progress you
> make in
> >>> this endeavor.
> >>> Don
> >>>
> >>> --
> >>> Don Bigler, Ph.D.
> >>> The Pennsylvania State University
> >>> NMR Building
> >>> H066 Radiology
> >>> Hershey Medical Center
> >>> Hershey, PA 17033 Phone: (717)531-5858
> >>> Fax: (717)531-8486
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> >
> > --
> > Don Bigler, Ph.D.
> > The Pennsylvania State University
> > NMR Building
> > H066 Radiology
> > Hershey Medical Center
> > Hershey, PA 17033 Phone: (717)531-5858
> > Fax: (717)531-8486
> >
> > Hershey Confidentiality Statement:
> >
> > This message (including any attachments) contains information intended
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