Hi Wayne,
Thanks for that sounds as if the selection brush tool is the way to go.
best wishes,
Matt
On 27 Apr 2014, at 03:48, "Rasband, Wayne (NIH/NIMH) [E]" <
[hidden email]> wrote:
> On Apr 23, 2014, at 2:53 PM, Matt Pearson wrote:
>
>> Hi all,
>>
>> I'd like to be able to isolate areas of a fluorescence image to work on and there a few points of interest. As ImageJ only supports one selection/ROI at a time could i use the overlay brush tool to paint over various points (if i use a large ish brush diameter) then convert these to ROI's or at least use the ROI manager to select each overlay in turn then make it an ROI-analyse it then move on to the next. I tried Image>Overlay>To ROI Manager but this doesn't seem to treat each overlay the same as it would a regular selection. I'd like to threshold based on the intensity under each overlay therefore it must become an ROI first, the overlay is purely to select parts of the image for further analysis.
>
> The Overlay Brush Tool, available via the toolbar's ">>" menu, is a drawing tool not suited for creating selections. Instead, use the Selection Brush Tool, available by right clicking on the Oval Tool icon, and add each selection to the overlay by pressing "b" (Image>Overlay>Add Selection). You will want to upgrade to the latest daily build (1.49a5), which fixes several bugs related to the Overlay Brush Tool and overlays.
>
> An overlay in ImageJ is a list of selections that are displayed on the image. Activate a selection in an overlay by long pressing on it. Use the Image>Overlay>List Elements command to list the selections in an overlay. Use the Image>Overlay>To ROI Manager command to move the selections in a overlay to the ROI Manager. The ROI Manager is basically an overlay with a GUI.
>
> -wayne
>
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