About: Shows the "About Colony Counter" message window.Delete colony: Activates/Deactivates the "Show all" function of the ROI Manager, allowing selection of a colony by clicking on it's number on the image, and then deleting it by pressing the keyboard letter "d".
The last value in the "Results" table and the *-RoiSet.zip file are updated. Add colony: Adds the currently selected area as a colony allowing correcting the automatic count.Count folder: Counts and/or loads the *-RoiSet.zip for all images in the current folder, and replaces the current "Results" table with the new results.Open next: Replaces the current image with the next one in the same folder and do the same as "Open image".The number of colonies is added in a new row to the "Results" table. Open image: Opens an image and automatically counts it's colonies, or simply loads and display the saved *-RoiSet.zip from a previous count.The plugin's interface is simple, on the left are the functions buttons, on the right the input fields for the settings.Įxcept for the "Delete mode" and the "About" buttons, all the others have a keyboard shortcut (visible inside square brackets on the button's name) that can be used when the mouse cursor is placed on the image. When the image is closed, a file named *-RoiSet.zip is automatically saved in the current folder, so that the next time the same image is opened, the plugin won't have to recount that image and can simply load the results from the *-RoiSet.zip. The obtained values are displayed in a "Results" table and can be saved in *.xls file format. This plugin was created to count bacteria colonies from agar plates images. Or subfolder, restart ImageJ, and there will be a new "Colony Counter" command in the Plugins menu or submenu. Included in Colony_Counter.jar, and is released under the GNU General Public License.ĭownload Colony_Counter.jar to the plugins folder, University of Lisbon, Faculty of Sciences
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