Re: Macro for merging 2 channels of .nd2 files

Posted by Cammer, Michael-2 on Aug 06, 2019; 11:29am
URL: http://imagej.273.s1.nabble.com/Macro-for-merging-2-channels-of-nd2-files-tp5022347p5022351.html

Perhaps this could serve as a model for one way to solve the problem.

http://microscopynotes.com/imagej/macros/simplefigure/index.html

Cheers-


Michael Cammer, Sr Research Scientist, DART Microscopy Laboratory

NYU Langone Health, 540 First Avenue, SK2 Microscopy Suite, New York, NY  10016

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________________________________
From: Krs5 <[hidden email]>
Sent: Tuesday, August 6, 2019 3:49:46 AM
To: [hidden email]
Subject: Re: Macro for merging 2 channels of .nd2 files

try to use

Ext.openImagePlus(path+filelist[i]);
run("Split Channels");

instead of
name = path + filelist[i];
run("Bio-Formats Importer", "open= ["+name+"] color_mode=Default
view=Hyperstack stack_order=XYCZT color_mode=Default split_channels");

You have to check what the titles will be of the different channels after
splitting them and adjusting your code accordingly.

Hope this works

Best wishes

Kees

Dr Ir K.R. Straatman
Senior Experimental Officer
Advanced Imaging Facility
Centre for Core Biotechnology Services
University of Leicester
https://urldefense.proofpoint.com/v2/url?u=http-3A__www.le.ac.uk_advanced-2Dimaging-2Dfacility&d=DwICAg&c=j5oPpO0eBH1iio48DtsedeElZfc04rx3ExJHeIIZuCs&r=hUBj2D5n6oKThx2L01qn8IORZb5f-ruLVXPmQ1zQNnM&m=ivbeSXjq3_KWhZ8NKmF0R-LSI1Ex78fFwEHjXJNmpEU&s=pMb6EXqr9ndZI2_6XSYYI5xeiZ513Y0eetWIgCt_JbA&e=

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