measurement of fluorescence intensity over time

classic Classic list List threaded Threaded
4 messages Options
Reply | Threaded
Open this post in threaded view
|

measurement of fluorescence intensity over time

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
Reply | Threaded
Open this post in threaded view
|

Re: measurement of fluorescence intensity over time

Herbie
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
Reply | Threaded
Open this post in threaded view
|

Re: measurement of fluorescence intensity over time

Michael Schmid-3
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
Reply | Threaded
Open this post in threaded view
|

Re: measurement of fluorescence intensity over time

María Victoria Pepe
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