Re: Sholl analysis composite and point selection issue

Posted by mia2005 on Nov 25, 2014; 8:59am
URL: http://imagej.273.s1.nabble.com/Sholl-analysis-composite-and-point-selection-issue-tp5010602p5010610.html

Dear Tiago,

(to have the actual plugin developer answering my question, I couldn't have asked for better)

Originally I did not have a C-slider but indeed I managed to go around that error by using "split channels" or as you said (Image>Color>Channels Tool) and selecting gray scale.

When I unchecked SCIFIO option, this did fix my error of not saving the "point selection" but it also changed the way FIJI was reading my image, and after I unchecked this, I no longer need to change my image to gray scale; as soon as I apply my threshold, the image is indeed binary and the Sholl plugin reads it as such. So this actually fixed both issues (perfect!).

I will now threshold all my images and try to follow the rest of the detailed information found here:

http://fiji.sc/Sholl_Analysis#Batch_Processing

in order to batch analyze my samples.

Once again, thank you so much for your fast and detailed information.
Obrigada,
Cátia