smoothness

[Rita Castilho]

Dear Image J users
I need to measure the smoothness (or the opposite, raggedness) of a
surface. It is an island, but I guess it could be any surface really. Is
there a way to measure this using Image J?

Thanks for any help or pointers you can give me!

Rita

--

RITA CASTILHO
Assistant Professor of Evolution at Universidade do Algarve
Centre of Marine Sciences, CCMAR/CIMAR Associate Laboratory

Mailing address:
Room 3.39
Building 7
Faculdade de Ciências e Tecnologia (FCT)
Universidade do Algarve
Campus de Gambelas
8005-139 Faro
Portugal

phone: [phone]
fax: [phone]
skype:ritacastilho

personal web <http://biocongroup.eu/BioCon/Castilho.html>
group publications <http://biocongroup.eu/Publications/Publications.html>
researcherid
<http://www.researcherid.com/ViewCitationMetrics.action?returnCode=ROUTER.Unauthorized&queryString=KG0UuZjN5Wm9C0%252FVjq6IqFJcu%252BN53FClVNGQsKko6Y8%253D&SrcApp=CR&Init=Yes>
google scholar author page
<http://scholar.google.com/citations?user=-2Rh37gAAAAJ&hl=en>




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[karo03]

This is or might be a typical question of texture analysis. Google a bit there are lots of measurements

Karsten

Am 04.12.2013 um 18:45 schrieb Rita Castilho <[hidden email]>:

> Dear Image J users
> I need to measure the smoothness (or the opposite, raggedness) of a surface. It is an island, but I guess it could be any surface really. Is there a way to measure this using Image J?
>
> Thanks for any help or pointers you can give me!
>
> Rita
>
> --
>
> RITA CASTILHO
> Assistant Professor of Evolution at Universidade do Algarve
> Centre of Marine Sciences, CCMAR/CIMAR Associate Laboratory
>
> Mailing address:
> Room 3.39
> Building 7
> Faculdade de Ciências e Tecnologia (FCT)
> Universidade do Algarve
> Campus de Gambelas
> 8005-139 Faro
> Portugal
>
> phone: [phone]
> fax: [phone]
> skype:ritacastilho
>
> personal web <http://biocongroup.eu/BioCon/Castilho.html>
> group publications <http://biocongroup.eu/Publications/Publications.html>
> researcherid <http://www.researcherid.com/ViewCitationMetrics.action?returnCode=ROUTER.Unauthorized&queryString=KG0UuZjN5Wm9C0%252FVjq6IqFJcu%252BN53FClVNGQsKko6Y8%253D&SrcApp=CR&Init=Yes>
> google scholar author page <http://scholar.google.com/citations?user=-2Rh37gAAAAJ&hl=en>
>
>
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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[Michael Doube-4]

Hi Rita

>> I need to measure the smoothness (or the opposite, raggedness) of a surface. It is an island, but I guess it could be any surface really.

What you're describing sounds just like the Mandlebrot classic: How long is the coast of Britain?
http://users.math.yale.edu/mandelbrot/web_pdfs/howLongIsTheCoastOfBritain.pdf

Maybe fractal analysis will help you?

Michael


<http://www.rvc.ac.uk>

This message, together with any attachments, is intended for the stated addressee(s) only and may contain privileged or confidential information. Any views or opinions presented are solely those of the author and do not necessarily represent those of the Royal Veterinary College.

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[Mauro Maiorca]

Hi Rita,

if A is your image, and s(A) is your image smoothed, you might want
to analyse |A-s(A)|. An easy way is to measure the variance of |A-s(A)|:
the higher variance, the more the raggedness. Also, you might want to play
around with the "smoothing" function s. Gaussian smoothing is isotropic,
thus var|A-s(A)| will also weight irregularity of the edges. In case you
are not interested in edges' irregularities, you can use an inhomogeneous
and/or anisotropic diffusion filter [1], for example the Perona-Malik has
the property of smoothing preserving edges and coherence enhancing
diffusion works well with fingerprint-like features, as a smoothing
function s you might also want to try a "total variation" approach [2].

cheers,
Mauro

[1] http://rsbweb.nih.gov/ij/plugins/anisotropic-diffusion.html
[2] http://fiji.sc/javadoc/fiji/denoise/ROF_Denoise.html


On Thu, Dec 5, 2013 at 4:45 AM, Rita Castilho <[hidden email]> wrote:

> Dear Image J users
> I need to measure the smoothness (or the opposite, raggedness) of a
> surface. It is an island, but I guess it could be any surface really. Is
> there a way to measure this using Image J?
>
> Thanks for any help or pointers you can give me!
>
> Rita
>
> --
>
> RITA CASTILHO
> Assistant Professor of Evolution at Universidade do Algarve
> Centre of Marine Sciences, CCMAR/CIMAR Associate Laboratory
>
> Mailing address:
> Room 3.39
> Building 7
> Faculdade de Ciências e Tecnologia (FCT)
> Universidade do Algarve
> Campus de Gambelas
> 8005-139 Faro
> Portugal
>
> phone: [phone]
> fax: [phone]
> skype:ritacastilho
>
> personal web <http://biocongroup.eu/BioCon/Castilho.html>
> group publications <http://biocongroup.eu/Publications/Publications.html>
> researcherid <http://www.researcherid.com/ViewCitationMetrics.action?
> returnCode=ROUTER.Unauthorized&queryString=KG0UuZjN5Wm9C0%252FVjq6IqFJcu%
> 252BN53FClVNGQsKko6Y8%253D&SrcApp=CR&Init=Yes>
> google scholar author page <http://scholar.google.com/
> citations?user=-2Rh37gAAAAJ&hl=en>
>
>
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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[Rita Castilho]

Hi Karsten
Thanks for taking the time. The problem is that I also need contour
jaggedness....

Rita

> Karsten <mailto:[hidden email]>
> December 4, 2013 10:18 PM
> This is or might be a typical question of texture analysis. Google a
> bit there are lots of measurements
>
> Karsten
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>
>
> Rita Castilho <mailto:[hidden email]>
> December 4, 2013 5:45 PM
> Dear Image J users
> I need to measure the smoothness (or the opposite, raggedness) of a
> surface. It is an island, but I guess it could be any surface really.
> Is there a way to measure this using Image J?
>
> Thanks for any help or pointers you can give me!
>
> Rita
>
>
> Rita Castilho <mailto:[hidden email]>
> December 3, 2013 6:06 PM
> Dear Image J users
> I need to measure the smoothness (or the opposite, raggedness) of a
> surface. It is an island, but I guess it could be any surface really.
> Is there a way to measure this using Image J?
>
> Thanks for any help or pointers you can give me!
>
> Rita
>
>

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

[Rita Castilho]

Hi Michael
Thanks for taking time to reply. There was indeed another suggestion
along the same lines. I am not familiar with fractal analysis, but I
will see what i can do!

Best
Rita

> Doube, Michael <mailto:[hidden email]>
> December 5, 2013 9:11 AM
> Hi Rita
>
>
> What you're describing sounds just like the Mandlebrot classic: How
> long is the coast of Britain?
> http://users.math.yale.edu/mandelbrot/web_pdfs/howLongIsTheCoastOfBritain.pdf
>
> Maybe fractal analysis will help you?
>
> Michael
>
>
> <http://www.rvc.ac.uk>
>
> This message, together with any attachments, is intended for the
> stated addressee(s) only and may contain privileged or confidential
> information. Any views or opinions presented are solely those of the
> author and do not necessarily represent those of the Royal Veterinary
> College.
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>
>
> Karsten <mailto:[hidden email]>
> December 4, 2013 10:18 PM
> This is or might be a typical question of texture analysis. Google a
> bit there are lots of measurements
>
> Karsten
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>
>
> Rita Castilho <mailto:[hidden email]>
> December 4, 2013 5:45 PM
> Dear Image J users
> I need to measure the smoothness (or the opposite, raggedness) of a
> surface. It is an island, but I guess it could be any surface really.
> Is there a way to measure this using Image J?
>
> Thanks for any help or pointers you can give me!
>
> Rita
>
>
> Rita Castilho <mailto:[hidden email]>
> December 3, 2013 6:06 PM
> Dear Image J users
> I need to measure the smoothness (or the opposite, raggedness) of a
> surface. It is an island, but I guess it could be any surface really.
> Is there a way to measure this using Image J?
>
> Thanks for any help or pointers you can give me!
>
> Rita
>
>

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

[Jim Passmore-2]

Rita,
There are a couple plugins listed on the ImageJ page that might help,
either on their own or in combination with the other suggestions made so
far.  I've got some surface measurement needs, but am probably going to
have to write something myself to get exactly what I want.  These will be
reference materials...

Fractal Surface Measurement (from Emerson Ferreira de Lucena)
http://rsbweb.nih.gov/ij/plugins/fractal2d/index.html

SurfCharJ (from Gary Chinga)
http://www.gcsca.net/IJ/SurfCharJ.html

Another option that may work is AFM/SPM software, which usually has
roughness/texture/etc. algorithms built in.  There are a couple free ones,
and a few more that have free trial versions.  Google search finds
references to Gwyddion, WSxM, GSXM, SPIP...




On Wed, Dec 4, 2013 at 12:45 PM, Rita Castilho <[hidden email]> wrote:

> Dear Image J users
> I need to measure the smoothness (or the opposite, raggedness) of a
> surface. It is an island, but I guess it could be any surface really. Is
> there a way to measure this using Image J?
>
> Thanks for any help or pointers you can give me!
>
> Rita
>
> --
>
> RITA CASTILHO
> Assistant Professor of Evolution at Universidade do Algarve
> Centre of Marine Sciences, CCMAR/CIMAR Associate Laboratory
>
> Mailing address:
> Room 3.39
> Building 7
> Faculdade de Ciências e Tecnologia (FCT)
> Universidade do Algarve
> Campus de Gambelas
> 8005-139 Faro
> Portugal
>
> phone: [phone]
> fax: [phone]
> skype:ritacastilho
>
> personal web <http://biocongroup.eu/BioCon/Castilho.html>
> group publications <http://biocongroup.eu/Publications/Publications.html>
> researcherid <http://www.researcherid.com/ViewCitationMetrics.action?
> returnCode=ROUTER.Unauthorized&queryString=KG0UuZjN5Wm9C0%252FVjq6IqFJcu%
> 252BN53FClVNGQsKko6Y8%253D&SrcApp=CR&Init=Yes>
> google scholar author page <http://scholar.google.com/
> citations?user=-2Rh37gAAAAJ&hl=en>
>
>
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

*-- Jim Passmore*
Research Associate
Sealed Air Corporation

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