Re: Grid/Collection Stitch
Posted by
Majurski, Michael Paul (Fed) on
Oct 23, 2015; 4:36pm
URL: http://imagej.273.s1.nabble.com/Grid-Collection-Stitch-tp5014667p5014741.html
It appears that your images do not have a uniform overlap between them. Some of them have approximately 25% overlap and some closer to 50%.
Because of that MIST cannot stitch these images. One of the core MIST assumptions is a uniform grid.
I have been unable to produce a viable stitched image using the Grid/Collection stitching plugin which mirrors your experience.
The last suggestions I have would be to use TrakEm2 to manually or semi-manually register the images into a composite.
Main site:
http://fiji.sc/TrakEM2Tutorials:
http://fiji.sc/TrakEM2_tutorialsA User manual:
https://www.ini.uzh.ch/~acardona/trakem2_manual.htmlBest of luck
Michael Majurski
-----Original Message-----
From: ImageJ Interest Group [mailto:
[hidden email]] On Behalf Of Cheuk Tam
Sent: Thursday, October 22, 2015 7:53 PM
To:
[hidden email]
Subject: Re: Grid/Collection Stitch
Dear Dr. Majurski,
Thank you for your response and generous offer to help. It would be amazing to use MIST to construct a fused image from metadata from Grid/Collection stitching of the optimal (Tuj1) channel. I've uploaded constituent images for a neurosphere to the following dropbox folder:
https://www.dropbox.com/sh/8idzyd0rh3qt3in/AADUA93Kd-31bK-pzzwCgt50a?dl=0The 08C6 Tuj1 and 08C6 Tuj1_Hoechst Overlay contain images taken in sequential, horizontal order starting at the upper left corner of the field of view. There are 5 rows of 4.
The "Previous Results" folder contain an image from stitching composite Tuj1/Hoechst pictures ("08C6_A_comp 10x fused") and from Tuj1 images alone ("08C6_A_Tuj1 10x fused"). The subfolder "Blurry Nuclei" contains an image of the Hoechst channel of the fused composite showing the blurry nuclei (as described last time) and an image of the corresponding constituent image.
Thank you again so much for your help.
Sincerely,
Cheuk
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