Average color map in ImageJ

[admaltais]

Hello,
I'm using ImageJ/Fiji to produce accurate vigour maps for a group of
organic farmers and the method, but the result is too precise to represent
the field. I look for a method to create an average colormap to represent
the weaker or stronger zone.

For now, my images look like this:

[image: Image alignée 1]

But I seek to represent my pictures like this:

[image: Image alignée 1]


Thanks
Alex

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[Mark J. Chopping]

Just run a median filter over the image (Process... Filters... Median).  You can play with the radius setting until you are happy.  This will remove high frequency "noise" (or signal, depending on your interpretation).

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[admaltais]

Hi Mark and thanks for your answer,

Unfortunetly, is it not the result i'm looking for, maybe i have too much
colors close to each other color/pixel. I will continue to find a solution.
I taught about gaussian blur with posterisation/threshold, but for now, it
doesn't work.
I looking for this because usually, NDVI map are low rez with all those
"zone" of unhealty plant, really quick to visualise and understand.

Thanks again
Cheers from Montréal

This is the kind of image i'm playing with

[image: Image alignée 1]

2015-08-26 12:29 GMT-04:00 Mark Chopping <[hidden email]>:

> Just run a median filter over the image (Process... Filters... Median).
> You can play with the radius setting until you are happy.  This will remove
> high frequency "noise" (or signal, depending on your interpretation).
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Romain Guiet]

Hi Alexandre,
Did you try to :
1- dowscale your image with averaging
 and
2- rescale back without interpolation
You could get a simplified map, but I'm not sure if it is exactly what you are looking for.
Cheers,
Romain

---------------------------------------------------------------
Dr. Romain Guiet
Bioimaging and Optics Platform (PT-BIOP)
Ecole Polytechnique Fédérale de Lausanne (EPFL)
Faculty of Life Sciences
Station 19, AI 0140
CH-1015 Lausanne

Phone: [+4121 69] 39629
http://biop.epfl.ch/
---------------------------------------------------------------

________________________________________
De : ImageJ Interest Group [[hidden email]] de la part de Alexandre Maltais [[hidden email]]
Envoyé : jeudi 27 août 2015 04:06
À : [hidden email]
Objet : Re: Average color map in ImageJ

Hi Mark and thanks for your answer,

Unfortunetly, is it not the result i'm looking for, maybe i have too much
colors close to each other color/pixel. I will continue to find a solution.
I taught about gaussian blur with posterisation/threshold, but for now, it
doesn't work.
I looking for this because usually, NDVI map are low rez with all those
"zone" of unhealty plant, really quick to visualise and understand.

Thanks again
Cheers from Montréal

This is the kind of image i'm playing with

[image: Image alignée 1]

2015-08-26 12:29 GMT-04:00 Mark Chopping <[hidden email]>:

> Just run a median filter over the image (Process... Filters... Median).
> You can play with the radius setting until you are happy.  This will remove
> high frequency "noise" (or signal, depending on your interpretation).
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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