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'unstitching'

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Julia Sedlmair

'unstitching'

Hi,

I hope this is the right list to ask, but I've been searching a while and didn't find a plugin to solve my problem.
I've been taking mosaic images with with a Bruker instrument, but there is a certain overlap in the tiles due to the specifications of the sample stage. Now, the OPUS software won't let me put the image into separate tiles.

Is there any way to change an mosaic into its tiles? The goal then would be to take those two tiles and stitch them together correctly. Is there even alternative to do that in 3d (2d image + spectral information)?

Thanks a lot

Julia

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Joel Sheffield

Re: 'unstitching'

If your tiles are spaced regularly, and you know the tiling array, you can
use Image>Stacks>tools>montage-to-stack . You can set the number of rows
and columns, and specify an (imagined) border if you wish.

Joel

On Tue, Dec 4, 2012 at 12:52 PM, Julia Sedlmair <[hidden email]>wrote:

> Hi,
>
> I hope this is the right list to ask, but I've been searching a while and
> didn't find a plugin to solve my problem.
> I've been taking mosaic images with with a Bruker instrument, but there is
> a certain overlap in the tiles due to the specifications of the sample
> stage. Now, the OPUS software won't let me put the image into separate
> tiles.
>
> Is there any way to change an mosaic into its tiles? The goal then would
> be to take those two tiles and stitch them together correctly. Is there
> even alternative to do that in 3d (2d image + spectral information)?
>
> Thanks a lot
>
> Julia
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--

Joel B. Sheffield, Ph.D
Department of Biology
Temple University
Philadelphia, PA 19122
Voice: 215 204 8839
e-mail: [hidden email]
URL: http://astro.temple.edu/~jbs

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Vergara, Leoncio A.

Re: 'unstitching'

I am afraid, she wants to recover the original tiles to re-do the stitching, in which case there would be an issue with the overlapping areas between them. If the images are fused in theose overlapping areas, you can re-cut the mosaic into new tiles, but the fused overlaps cannot be separated to recover the original tiles, am I right?

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of JOEL B. SHEFFIELD
Sent: Tuesday, December 04, 2012 2:18 PM
To: [hidden email]
Subject: Re: 'unstitching'

If your tiles are spaced regularly, and you know the tiling array, you can use Image>Stacks>tools>montage-to-stack . You can set the number of rows and columns, and specify an (imagined) border if you wish.

Joel

On Tue, Dec 4, 2012 at 12:52 PM, Julia Sedlmair <[hidden email]>wrote:

> Hi,
>
> I hope this is the right list to ask, but I've been searching a while
> and didn't find a plugin to solve my problem.
> I've been taking mosaic images with with a Bruker instrument, but
> there is a certain overlap in the tiles due to the specifications of
> the sample stage. Now, the OPUS software won't let me put the image
> into separate tiles.
>
> Is there any way to change an mosaic into its tiles? The goal then
> would be to take those two tiles and stitch them together correctly.
> Is there even alternative to do that in 3d (2d image + spectral information)?
>
> Thanks a lot
>
> Julia
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

Cammer, Michael

Re: 'unstitching'

yes.

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Vergara, Leoncio A.
Sent: Tuesday, December 04, 2012 4:15 PM
To: [hidden email]
Subject: Re: 'unstitching'

I am afraid, she wants to recover the original tiles to re-do the stitching, in which case there would be an issue with the overlapping areas between them. If the images are fused in theose overlapping areas, you can re-cut the mosaic into new tiles, but the fused overlaps cannot be separated to recover the original tiles, am I right?

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

Julia Sedlmair

Re: 'unstitching'

I'm not sure if I explained it well enough:
Let's say I have a 2x1 mosaic with 64x128 pixels. I want to make 2 64x64 tiles out of it. Then I would like to use the stitching plugin but I don't need to end up with a 64x128 mosaic in the end.

Thanks for the quick responds so far.

On Dec 4, 2012, at 3:29 PM, Cammer, Michael wrote:

> yes.
>
> -----Original Message-----
> From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Vergara, Leoncio A.
> Sent: Tuesday, December 04, 2012 4:15 PM
> To: [hidden email]
> Subject: Re: 'unstitching'
>
> I am afraid, she wants to recover the original tiles to re-do the stitching, in which case there would be an issue with the overlapping areas between them. If the images are fused in theose overlapping areas, you can re-cut the mosaic into new tiles, but the fused overlaps cannot be separated to recover the original tiles, am I right?
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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Vergara, Leoncio A.

Re: 'unstitching'

Looks good, if you don't have overlapping of the original tiles.... then my comment does not apply. You just need to cut the mosaic and then re do the stitching with the resulting tiles using whatever overlap you set during image acquisition. I am assuming then the images were captured with an overlap (as required for stitching) but the mosaic was constructed ignoring that overlap.

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Julia Sedlmair
Sent: Tuesday, December 04, 2012 3:33 PM
To: [hidden email]
Subject: Re: 'unstitching'

I'm not sure if I explained it well enough:
Let's say I have a 2x1 mosaic with 64x128 pixels. I want to make 2 64x64 tiles out of it. Then I would like to use the stitching plugin but I don't need to end up with a 64x128 mosaic in the end.

Thanks for the quick responds so far.

On Dec 4, 2012, at 3:29 PM, Cammer, Michael wrote:

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