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Re: Importing Tiles of Stacks into TrakEM

Posted by Albert Cardona-2 on Feb 12, 2015; 7:52pm
URL: http://imagej.273.s1.nabble.com/Importing-Tiles-of-Stacks-into-TrakEM-tp5011582p5011584.html

Hi Oli,

I would do this with a script that reads each multi-TIFF file and positions
a tile at the right place.

Albert

2015-02-12 8:32 GMT-05:00 Burri Olivier <[hidden email]>:

> Hi all,
>
> We were asked the following question by one of our users who has a couple
> of TB of tiled stacks that he would like to import into TrakEM.
>
> > I would like to import stacks into trackEM and place them at the right
> position.
> > therefore i generate the textfile of the xyz position of the origin of
> the stack.
> > the files are compressed 3d Tiff files of 100 slices each.
> > The files gets placed at the right xy coordinate but z is not
> distributed onto the different layers.
> > However one single 3d tiff file stack gets imported just fine.
> >
> > Is there something to be done or do i have to reconvert all the stacks
> into single files ?
> > Converting the 3dtiffs into single plane tiff would be very time
> consuming as the compound datasize is very high.
> >
> >
> >thank you
>
> So far the only solution I could think of based on the Tutorials was to
> export each stack as a series of TIFFs then import those into TrackEM.
>
> Is there another way to import a tiling of TIFF stacks?
>
> Thanks for any feedback you might have,
>
>
> Oli
>
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>



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http://www.janelia.org/lab/cardona-lab
http://www.ini.uzh.ch/~acardona/

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