Will ImageJ be able to convert a stacks of 2D images to 3D?

[Jinming Zhu]

Can anyone tell me if ImageJ will be able to convert a stack of 2D images taken by rotating an object every 10 degree to a 3D viewer?

Jinming

[Bill Mohler]

Yes. See the manual on the menu command 3D Project.

Jinming Zhu wrote:
> Can anyone tell me if ImageJ will be able to convert a stack of 2D images taken by rotating an object every 10 degree to a 3D viewer?
>
> Jinming
>
>  

[Wei Shen-2]

Dear all,

Sorry to bother. I'm wondering if there is a plugin for imgaeJ to read
slidebook file. Thanks a lot

Wei

JHMI

[ctrueden]

Hi JHMI,

Sorry to bother. I'm wondering if there is a plugin for imgaeJ to read
> slidebook file. Thanks a lot
>

Try Bio-Formats -- http://www.loci.wisc.edu/ome/formats.html.

-Curtis

[Jinming Zhu]

I am using imageJ to compare two different shapes from two images. I got some results. Can anyone tell me the meanings of 'FeretAngle', 'kurt', 'AR' in below Table, or direct me to where has this type of information?

Label                   Kurt            Feret           FeretAngle      AR
T30dat_0.jpg    5.002           14.761  117.624 1.911
D30dat_0.jpg    5.94            6.701           141.363 1.251

Jinming

[BenTupper]

Hello,

You can find information on these names from the online  
documentation.  See http://rsb.info.nih.gov/ij/docs/menus/analyze.html#set

Cheers,
Ben

On Sep 14, 2009, at 11:43 AM, Jinming Zhu wrote:

> I am using imageJ to compare two different shapes from two images. I  
> got some results. Can anyone tell me the meanings of 'FeretAngle',  
> 'kurt', 'AR' in below Table, or direct me to where has this type of  
> information?
>
> Label                   Kurt            Feret            
> FeretAngle      AR
> T30dat_0.jpg    5.002           14.761  117.624 1.911
> D30dat_0.jpg    5.94            6.701           141.363 1.251
>
> Jinming

Ben Tupper

[Jinming Zhu]

Can anyone tell me how to measure total length of a root picture by ImageJ? Or direct me where I can do it.

Jinming

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Ben Tupper
Sent: Monday, September 14, 2009 11:53 AM
To: [hidden email]
Subject: Re: meanings of 'FeretAngle', 'kurt', 'AR'

Hello,

You can find information on these names from the online
documentation.  See http://rsb.info.nih.gov/ij/docs/menus/analyze.html#set

Cheers,
Ben

On Sep 14, 2009, at 11:43 AM, Jinming Zhu wrote:

> I am using imageJ to compare two different shapes from two images. I
> got some results. Can anyone tell me the meanings of 'FeretAngle',
> 'kurt', 'AR' in below Table, or direct me to where has this type of
> information?
>
> Label                   Kurt            Feret
> FeretAngle      AR
> T30dat_0.jpg    5.002           14.761  117.624 1.911
> D30dat_0.jpg    5.94            6.701           141.363 1.251
>
> Jinming

Ben Tupper

[Jan Eglinger-5]

Dear Jinming,


Jinming Zhu wrote:
> Can anyone tell me how to measure total length of a root picture by ImageJ? Or direct me where I can do it.

what do you mean by "root picture"?
Did you try thresholding, followed by "Skeletonize (2D/3D)" and "Analyze
Skeleton (2D/3D)"?

See this plugin:
  http://pacific.mpi-cbg.de/wiki/index.php/AnalyzeSkeleton

Cheers,
Jan

[Jinming Zhu]

Jan,

I mean it's a plant root image, and I wanna measure total length.

J

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Jan Eglinger
Sent: Monday, September 14, 2009 1:21 PM
To: [hidden email]
Subject: Re: how to measure total length of a root picture by ImageJ

Dear Jinming,


Jinming Zhu wrote:
> Can anyone tell me how to measure total length of a root picture by ImageJ? Or direct me where I can do it.

what do you mean by "root picture"?
Did you try thresholding, followed by "Skeletonize (2D/3D)" and "Analyze
Skeleton (2D/3D)"?

See this plugin:
  http://pacific.mpi-cbg.de/wiki/index.php/AnalyzeSkeleton

Cheers,
Jan

[Jinming Zhu]

Using Skeleton (2D) plugin in imageJ to analyze a 2D image, I got some output results. Can anyone tell me the meanings of 'Skeleton ID','Branch length','V1 x   V1 y    V1 z    V2 x    V2 y    V2 z', and 'Euclidean distance'? or tell me where I can find interpretations for these definitions. I did not see any interpretations when I downloaded this plugin.

Jinming

[Ignacio Arganda-Carreras]

Hey Jinming,

You have the documentation in the Fiji website:

http://pacific.mpi-cbg.de/wiki/index.php/AnalyzeSkeleton#Table_of_results

ignacio

On Wed, Sep 16, 2009 at 3:14 PM, Jinming Zhu
<[hidden email]>wrote:

> Using Skeleton (2D) plugin in imageJ to analyze a 2D image, I got some
> output results. Can anyone tell me the meanings of 'Skeleton ID','Branch
> length','V1 x   V1 y    V1 z    V2 x    V2 y    V2 z', and 'Euclidean
> distance'? or tell me where I can find interpretations for these
> definitions. I did not see any interpretations when I downloaded this
> plugin.
>
> Jinming
>



--
Ignacio Arganda-Carreras, Ph.D.
Institute of Neuroinformatics
Uni/ETH Zurich
Winterthurerstrasse 190
Bau 55
Zurich 8057
[phone]

Website: http://bioweb.cnb.csic.es/~iarganda/