The user interface of the plugin provides the following features: The initial scatterPlot plot limits correspond to the minimal and maximal intensity values of the input pictures. This plugin displays a correlation diagram (called scatterPlot picture) from two initial pictures having the same size together with a RGB overlap of the original images (called Composite picture). To open a JAR file, change the extension from ".jar" to ".zip" and double click on it.ĭownload Colocalization_Finder.jar to the plugins folder, or subfolder, restart ImageJ, and there will the " Colocalization Finder." new command in the Plugins menu. The possibility to set ROIs with given colors with a mouse double click has been erased (due to the ImageJ 1.53c 26 June 2020 update) and replaced by a Ctrl + mouse click user actionĬontained in the JAR file. Addition of the Mander's coefficients (M1 & M2) calculation Addition of a "Set" button at the bottom left of the scatterPlot picture allowing so set the limits of the scatterPlot graph and/or of the scatterPlot Roi and/or choosing the displayed parameters within the label panel at the bottom of the scatterPlot Addition of a label panel at the bottom of the scatterPlot picture displaying the limits of the scatterPlot Roi selection (or other parameters upon selection) Possibility to choose the size of the scatter plot upon start of the plugin
Addition of synchronized background thread for smoothly updating the calculations on the fly Possibility to add a selection within the Composite picture to restric the analysis to a given selection The colocalization calculations are performed using double parameters instead of float Addition of scripting possibilities illustrated within the macro examples that can be downloaded here and here. Possibility to generate the x or y histogram with a Gaussian fit in order to extract the histogram maximum position by using the numeric pad 4/6 or 2/8 keys Possibility to set ROIs with given colors with a mouse double click Possibility to move the ROI position (within the scatter plot) from the mouse position within the overlay picture The selected points within the overlay picture are updated as soon as the ROI in the scatter plot is modified or dragged over
Addition of a plot (with legends, ticks (minor and major), labels) within the scatter plot Extension of the plugin for whatever picture dynamics Replacement of the deprecated functions (getBoundingRect, IJ.write) by the new ones
#Imagej colocalization analysis update#
You now have to click in the ROI to update overaly image(s) and statistics Chinga.Ĩ: Version 1.1: Statistical methods added.
#Imagej colocalization analysis code#
Philippe Carl (maintainer), UMR7021, Strasbourg, France.Ģ: First version: Parts of the initial code were taken from plugins by W. Jerome Mutterer, Institut de Biologie Moleculaire des Plantes, Strasbourg, France. Colocalization_Finder Colocalization_Finder
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