Hi!
I need to measure the fluorescence intensity within a circular selection and then, repeat the measurement in the same way over 800 slices (each one represents a time point) I would like to know how to create a macro that allows me to do this automatically Thanks for your help -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
Good day María Victoria,
I guess you need the mean intensity in the circular selections for all slices. If so, 1. make the desired selection on the first slice of your stack 2. add the selection to the ROI Manager (Analyze >> Tools >> ROI Manager >> Add) 3. makes sure that in "Set Measurements" the "Mean gray value" is checked 4. in the ROI Manager dialog go to "More >> Multi Measure" 5. in the opening dialog check all options and click "OK" 6. a Results table opens showing the desired mean values HTH Herbie ::::::::::::::::::::::::::::::::::::::::::::::::: Am 25.09.19 um 20:27 schrieb María Victoria Pepe: > Hi! > > I need to measure the fluorescence intensity within a circular selection > and then, repeat the measurement in the same way over 800 slices (each one > represents a time point) > > I would like to know how to create a macro that allows me to do this > automatically > > > > Thanks for your help > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html > -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
In reply to this post by María Victoria Pepe
Hi María Victoria,
if you have an image stack, you can simply use Image>Stacks>Plot z-Axis Profile. No macro required. Alternatively, use Image>Stacks>Measure Stack; it will give you the values for whatever properties you have selected in Analyze>Set Measurements. You will probably want "Mean". Of course, you can record these commands (Plugins>Macros>Record) and use them in a macro. Michael ________________________________________________________________ On 25.09.19 20:27, María Victoria Pepe wrote: > Hi! > > I need to measure the fluorescence intensity within a circular selection > and then, repeat the measurement in the same way over 800 slices (each one > represents a time point) > > I would like to know how to create a macro that allows me to do this > automatically > > > > Thanks for your help > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html > -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
Thank you very much for your answers
They were very helpful El mié., 25 sept. 2019 a las 17:22, Michael Schmid (<[hidden email]>) escribió: > Hi María Victoria, > > if you have an image stack, you can simply use Image>Stacks>Plot z-Axis > Profile. No macro required. > Alternatively, use Image>Stacks>Measure Stack; it will give you the > values for whatever properties you have selected in Analyze>Set > Measurements. You will probably want "Mean". > > Of course, you can record these commands (Plugins>Macros>Record) and use > them in a macro. > > > Michael > ________________________________________________________________ > On 25.09.19 20:27, María Victoria Pepe wrote: > > Hi! > > > > I need to measure the fluorescence intensity within a circular selection > > and then, repeat the measurement in the same way over 800 slices (each > one > > represents a time point) > > > > I would like to know how to create a macro that allows me to do this > > automatically > > > > > > > > Thanks for your help > > > > -- > > ImageJ mailing list: http://imagej.nih.gov/ij/list.html > > > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html > -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
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