FIJI (ImageJ): Automating Analysis with Macros [I. Simple Macros & the Macro Recorder]

Learn how to use FIJI (ImageJ) to automate a series of commands by using the macro recorder. A macro or script can be used to document the analysis procedures taken and apply these same steps to other images. Macros reduce repetitive tasks and speed up analysis for a large number of images. Part 1 of this macro writing tutorial starts from the basics: creating simple macros from the macro recorder.
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[@jaeLAX23]

Happy to see you past the 1K subscriber mark! 👏

[@johanna.m.dela-cruz]

Thanks. Your support means a lot.

[@jaeLAX23]

@@johanna.m.dela-cruz You bet, keep up the good work! Also, was wondering if you can help with a problem I have with Fiji. The most recent update makes my workflow a lot more tedious. I need to apply the "clear outside" (under the Edits tab) function for each individual image in a stack. Previously, I could select my ROI, then select "clear outside", then Fiji would ask if I whether or not I wanted to apply to the entire stack, and I would select "no". Is there a dialog box with an option I have to check off somewhere to do this now? This would make my work much less tedious and time consuming. Thanks for any help!

[@jaeLAX23]

Nevermind, I think my mistake was thinking I did my previous work with colored composite images, but it has to be done with grey scale images. I should really write down my workflow one of these days so I don't forget and upset myself! Lol! Have a nice week Johanna!

[@johanna.m.dela-cruz]

Glad you figured that out.