Re: Tracing neurons in Sholl analysis
Posted by
Mark Longair-2 on
Aug 03, 2010; 9:26am
URL: http://imagej.273.s1.nabble.com/Tracing-neurons-in-Sholl-analysis-tp3687379p3687381.html
Cris,
There is now an interface for doing Sholl analysis in the
current version of Simple Neurite Tracer. (You should do
"Help > Update Fiji" to make that you have the newest version.)
I would still regard this feature as experimental, since it's
new and the results haven't been validated against any other
data. There is a tutorial here:
http://pacific.mpi-cbg.de/wiki/index.php/Simple_Neurite_Tracer%3A_Sholl_analysisI would be interested in any feedback, or suggestions for
pre-analyzed data that could be used for validation.
regards,
mark
[.. no next text below ..]
Mark Longair <
[hidden email]> wrote:
>
> Cris R <
[hidden email]> wrote:
>>
>> Dear List,
>>
>> I am trying to do Sholl analysis with the Sholl analysis plugin but I don't
>> know which would be the best way of tracing the neurons. If you have any
>> suggestion I would very much appreciate it.
>>
>> Thank you,
>>
>> Cris
>
> Cris,
>
> You could consider using Simple Neurite Tracer (bundled in Fiji)
> for the tracing. As it happens, I'm working at the moment on
> adding Sholl analysis (a much requested feature!) [1] so
> hopefully soon you'll be able to do everything with just that
> plugin.
>
>
http://pacific.mpi-cbg.de/wiki/index.php/Simple_Neurite_Tracer
>
> regards,
> mark
>
> [1]
http://longair.net/mark/sholl-work-in-progress.png