NeuronJ

[Surita Banwait]

Hello

 

I am new to ImageJ as well as the NeuronJ plugin.  Does anyone know what
the units are for the length measurement output for axons/dendrites in
the program?

 

Thanks,

Surita  

 

~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Surita Banwait

Morphology & Imaging Core

Research Associate II        

Buck Institute for Age Research

8001 Redwood Blvd.

Novato, CA 94945

415-209-2221

[hidden email]

~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

 

[lechristophe]

These length are in pixels for an unscaled image. However you can set
the scale of your image in the NeuronJ preference. One thing I don't
know is if scale set with ImageJ are detected within NeuronJ or if you
have to set the scale from inside NeuronJ exclusively.
Anyway, I usually keep everything unscaled (so the values are pixels)
and translate afterward (on an excel spreadsheet) using scale (1 pixel =
X nm) obtained from calibration gratings imaged with the same
magnification settings.

Christophe

Surita Banwait a écrit :

> Hello
>
>  
>
> I am new to ImageJ as well as the NeuronJ plugin.  Does anyone know what
> the units are for the length measurement output for axons/dendrites in
> the program?
>
>  
>
> Thanks,
>
> Surita  
>
>  
>
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
> Surita Banwait
>
> Morphology & Imaging Core
>
> Research Associate II        
>
> Buck Institute for Age Research
>
> 8001 Redwood Blvd.
>
> Novato, CA 94945
>
> 415-209-2221
>
> [hidden email]
>
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
>  
>
>  

[Volker Baecker]

Hello Surita,
open the NeuronJ parameter dialog. The button next to the one with the
colors. There you can configure the pixel size and the unit.
Volker

Surita Banwait a écrit :

> Hello
>
>  
>
> I am new to ImageJ as well as the NeuronJ plugin.  Does anyone know what
> the units are for the length measurement output for axons/dendrites in
> the program?
>
>  
>
> Thanks,
>
> Surita  
>
>  
>
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
> Surita Banwait
>
> Morphology & Imaging Core
>
> Research Associate II        
>
> Buck Institute for Age Research
>
> 8001 Redwood Blvd.
>
> Novato, CA 94945
>
> 415-209-2221
>
> [hidden email]
>
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
>  
>
>  

--
passerelle antivirus du campus CNRS de Montpellier
--

[Sébastien Thomas]

In my version of NeuronJ, I don't have access to the scale parameters  
as indicated by Mr Bäcker.

However, to answer your question and Mr Leterrier 's, yes the scale  
parameters set in ImageJ are detected by NeuronJ.  Therefore, if your  
original image is calibrated, the measurements in NeuronJ are  
correctly scaled (e.g. µm)

Sébastien

Le 19-09-2006 à 11:43, Christophe Leterrier a écrit :

> These length are in pixels for an unscaled image. However you can  
> set the scale of your image in the NeuronJ preference. One thing I  
> don't know is if scale set with ImageJ are detected within NeuronJ  
> or if you have to set the scale from inside NeuronJ exclusively.
> Anyway, I usually keep everything unscaled (so the values are  
> pixels) and translate afterward (on an excel spreadsheet) using  
> scale (1 pixel = X nm) obtained from calibration gratings imaged  
> with the same magnification settings.
>
> Christophe
>
> Surita Banwait a écrit :
>> Hello
>>
>>
>> I am new to ImageJ as well as the NeuronJ plugin.  Does anyone  
>> know what
>> the units are for the length measurement output for axons/
>> dendrites in
>> the program?
>>
>>
>> Thanks,
>>
>> Surita
>>
>> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>>
>> Surita Banwait
>>
>> Morphology & Imaging Core
>>
>> Research Associate II
>> Buck Institute for Age Research
>>
>> 8001 Redwood Blvd.
>>
>> Novato, CA 94945
>>
>> 415-209-2221
>>
>> [hidden email]
>>
>> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>>
>>
>>