Re: Combining serial sections in one volume

Posted by Pavel Tomancak on Dec 12, 2013; 9:15pm
URL: http://imagej.273.s1.nabble.com/Combining-serial-sections-in-one-volume-tp5005881p5005896.html

Dear Leo,

Have a look at those papers

Saalfeld, Stephan; Cardona, Albert; Hartenstein, Volker; Tomancák, Pavel
As-rigid-as-possible mosaicking and serial section registration of large ssTEM datasets
Bioinformatics, 26, no. 12, pp. 57-63, (2010)

Saalfeld, Stephan; Fetter, Richard; Cardona, Albert; Tomancak, Pavel
Elastic volume reconstruction from series of ultra-thin microscopy sections.
Nat. Methods, 9, no. 7, pp. 717-720, (2012)

Cardona, Albert; Saalfeld, Stephan; Schindelin, Johannes; Arganda-Carreras, Ignacio; Preibisch, Stephan W.; Longair, Mark; Tomancak, Pavel; Hartenstein, Volker; Douglas, Rodney J
TrakEM2 Software for Neural Circuit Reconstruction.
PLoS ONE, 7, no. 6, (2012)

All software is available in Fiji.

All the best

PAvel

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On Dec 12, 2013, at 10:02 PM, Leandro Lemgruber <[hidden email]> wrote:

> Dear Philippe
>
> I have tried, but the result was not good at all. Not like when I have
> tomograms.
>
> Cheers
>
>
> On Thu, Dec 12, 2013 at 4:33 AM, Philippe Mailly
> <[hidden email]> wrote:
>> Hi Leo,
>>
>> You can try IMOD software from Boulder Laboratory
>> http://bio3d.colorado.edu/imod/? It is designed to do 3D reconstruction from
>> electronic tomography or serial sections.
>>
>>
>> Philippe
>>
>> Le 11/12/2013 19:54, Leandro Lemgruber a écrit :
>>>
>>> Dear list
>>>
>>> this is quite a basic question:
>>> I have some serial sections of an organelle that I took in a TEM. I
>>> want to combine them in a volume, but so far I was not successful.
>>> Could anyone give me an advice on how to do that?
>>>
>>> Thanks!
>>>
>>> Cheers
>>>
>>> Leo
>>>
>>> --
>>> ImageJ mailing list:http://imagej.nih.gov/ij/list.html
>>>
>>
>>
>> --
>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>
>
>
> --
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>
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