Calculation of area with certain color

Hello everyone,


I am working on the development of the weed control procedure. We are monitoring plant color. Healthy plant is green and damaged plant is brown/black. Basically we need to know what is the extend of tissue browning.


How can I calculate the area of the brown or green color using ImageJ? We take picture with point-and-shoot camera.


Thank you,

Ina P

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

[Brandon Hurr]

I would recommend 2 things:

Take a better photo:
Looks like you might have the flash on, there is a lot of glare, this will
be difficult to determine its color. I would suggest diffuse lighting that
surrounds your object of interest.

Segmentation
You could start by using the color threshold plugin segment your
green/yellow and then segment your brown/red/orange creating an ROI from
each.

HTH,
Brandon

On Mon, Apr 6, 2015 at 4:01 PM, Popova, Inna ([hidden email]) <
[hidden email]> wrote:

> Hello everyone,
>
>
> I am working on the development of the weed control procedure. We are
> monitoring plant color. Healthy plant is green and damaged plant is
> brown/black. Basically we need to know what is the extend of tissue
> browning.
>
>
> How can I calculate the area of the brown or green color using ImageJ? We
> take picture with point-and-shoot camera.
>
>
> Thank you,
>
> Ina P
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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

[Jerome Mutterer-3]

Ina,

The easiest way to segment those populations is the use the
Image>Adjust>Color Threshold command. You can clearly see 3 Hue populations.
In your example, I used the following thresholds:
Hue 42-90
Saturation 0-255
Brightness 59-255

The Threshold displayed as a plain red color overlay by the Color Threshold
command can be converted to a Selection using the Select button. Then go to
Analyze>Measure, and that will give you the Area of the selected healthy
greenish plants.

Sincerely,

Jerome.



On 7 April 2015 at 05:00, Brandon Hurr <[hidden email]> wrote:

> I would recommend 2 things:
>
> Take a better photo:
> Looks like you might have the flash on, there is a lot of glare, this will
> be difficult to determine its color. I would suggest diffuse lighting that
> surrounds your object of interest.
>
> Segmentation
> You could start by using the color threshold plugin segment your
> green/yellow and then segment your brown/red/orange creating an ROI from
> each.
>
> HTH,
> Brandon
>
> On Mon, Apr 6, 2015 at 4:01 PM, Popova, Inna ([hidden email]) <
> [hidden email]> wrote:
>
> > Hello everyone,
> >
> >
> > I am working on the development of the weed control procedure. We are
> > monitoring plant color. Healthy plant is green and damaged plant is
> > brown/black. Basically we need to know what is the extend of tissue
> > browning.
> >
> >
> > How can I calculate the area of the brown or green color using ImageJ? We
> > take picture with point-and-shoot camera.
> >
> >
> > Thank you,
> >
> > Ina P
> >
> > --
> > ImageJ mailing list: http://imagej.nih.gov/ij/list.html
> >
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
Jerome Mutterer
CNRS - Institut de biologie moléculaire des plantes
12, rue du Général Zimmer
67084 Strasbourg Cedex
www.ibmp.cnrs.fr

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