Re: large files

Posted by ctrueden on
URL: http://imagej.273.s1.nabble.com/Re-large-files-tp5019567p5019642.html

Hi Jim,

Have you looked at TrakEM2? https://imagej.net/TrakEM2

It supports both automatic and manual image registration, including the
case where you need to correct for distorted tissue. The video tutorials
might be useful:
https://imagej.net/TrakEM2_tutorials

Regards,
Curtis

P.S. Regarding large files -- the ImageJ Forum (http://forum.imagej.net/)
supports attaching images up to 32MB.

--
Curtis Rueden
LOCI software architect - https://loci.wisc.edu/software
ImageJ2 lead, Fiji maintainer - https://imagej.net/User:Rueden
Did you know ImageJ has a forum? http://forum.imagej.net/


On Fri, Oct 20, 2017 at 8:05 AM, Ewing James <[hidden email]>
wrote:

> Thanks for the tip.
> I’m trying to register two files, the first an undistorted image a rat
> brain, and the second a distorted tissue slice of approximately the same
> slice. I put the two files are on box.com <http://box.com/>, with the link
> https://app.box.com/s/cfrh9iwh1i7frjtz40j0n46icbhm1rke <
> https://app.box.com/s/cfrh9iwh1i7frjtz40j0n46icbhm1rke>
>
> The first file is tagged slice.tif, and the second is
> PS02C_H&E_1x.jpg.tif. First file is an MRI image, second is an H&E tissue
> slice.  I want to morph the H&E slide to the MRI.
>
> In Fiji, I tried Plugins>Registration>Register Virtual Stack Slices, and
> bUnbwarpJ, with no apparent success.  Plugins>Landmarks>Name Landmarks and
> Register seemed like it should work, but generated a map of 0’s with the
> legend at the top saying “Transformed (33%)” when I tried the thin-plate
> spline registration algorithm. I would bet that there are a number of users
> out there who have solved this problem.  Any hints?  Thanks in advance.
>
> - Jim Ewing
>
>
> > On Oct 19, 2017, at 11:29 AM, Brandon Hurr <[hidden email]>
> wrote:
> >
> > Put them on Dropbox or Google Drive and provide a public link in your
> > message.
> >
> > How big are we talking? gDrive takes up to 2 GB file size I believe.
> >
> > HTH,
> > B
> >
> > On Thu, Oct 19, 2017 at 8:04 AM, Ewing James <[hidden email]
> >
> > wrote:
> >
> >> Dear List -
> >>
> >> I have two large files that I’d like some advice on co-registering.  Is
> >> there some place that I can drop these files?  The list server won’t
> let me
> >> attach either one to this message.
> >>
> >> - Jim Ewing
> >> --
> >> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
> >>
> >
> > --
> > ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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