Re: manual stitching problem

Posted by Johannes Schindelin on
URL: http://confocal-microscopy-list.275.s1.nabble.com/manual-stitching-problem-tp7581006p7581011.html

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Hi Yevgeniy,

On Mon, 23 Sep 2013, Yevgeniy Romin wrote:

> I thought about doing that, but thought that I may be able to avoid
> recreating each tile myself.  Do you know if ImageJ will stitch together
> straight-up *.lif files?  Which plugins do you recommend?

The easiest way to install the most useful plugins for life sciences is to
go with the Fiji distribution of ImageJ: http://fiji.sc/. (Although I am
the maintainer of this software, I have no commercial benefit from it, so
this is not a commercial response). Fiji includes an updater (which is
actually the ImageJ2 updater) to keep you up-to-date without major
hassles.

Fiji includes Bio-Formats to open .lif files. There is even a way to
follow the most recent Bio-Formats in case you need a recent bug fix that
did not make it into a stable Bio-Formats release yet:
http://fiji.sc/Bio-Formats#Daily_builds

As to stitching, Fiji includes this plugin: http://fiji.sc/Stitching. I
would be surprised if you could not make it do what you require...

Ciao,
Johannes