[Mrtrix-discussion] labelconfig

[Manuel Blesa Cábez]

Hi Robert,

Thanks for the information, I followed the tutorial and finally create the
connectome matrix.

Now I would like to create a connectome representation, do you know how I
can do it? It's possible to create all the nodes of my atlas with MRtrix?

Thanks in advance.

Best regards,

Manuel Blesa


2014-07-08 8:19 GMT+02:00 Robert Smith <robert.smith at florey.edu.au>:

> Hi Manuel (and all),
>
> Yes, the labelconfig step has been a stumbling block for many users.
>
> When I started writing the connectome code for my own evil purposes, I
> wanted something as flexible as possible, that kept in line with the
> modular design philosophy of MRtrix. In my mind, labelconfig is actually
> an 'essential' step for connectome construction (based on the atlases I
> have seen); I suspect that other software packages may somehow deal with
> the problem implicitly, or people have been doing this operation the slow &
> painful way...
>
> I have given labelconfig its own dedicated page
> <https://github.com/jdtournier/mrtrix3/wiki/labelconfig-worked-example>
> in the MRtrix GitHub wiki <https://github.com/jdtournier/mrtrix3/wiki>. I
> hope that the worked example there is adequate for people to wrap their
> heads around why this command is necessary, what its actual purpose is, and
> why it's beneficial for this to be an explicit step. Let me know if any
> aspects of its use are still unclear and I will update the page accordingly.
>
> Best regards
> Rob
>
>
> --
>
> *Robert Smith, Ph.D*
> Research Officer, Imaging Division
>
> The Florey Institute of Neuroscience and Mental Health
> Melbourne Brain Centre - Austin Campus
> 245 Burgundy Street
> Heidelberg Vic 3084
> Ph: +61 3 9035 7128
> Fax: +61 3 9035 7301
> www.florey.edu.au
>
>
> On Tue, Jul 8, 2014 at 3:02 AM, Manuel Blesa Cábez <mblesac at gmail.com>
> wrote:
>
>>  Dear all,
>>
>> I want to create the connectome using MRtrix, but I don't know exactly
>> how to do it.
>>
>> I have my parcellated file and the relation between the labels and the
>> names (similar to the example file aal.txt). What more I need to launch the
>> labelconfig? Which are the correct input files?
>>
>> Thanks in advance.
>>
>> Best regards,
>>
>> Manuel Blesa
>>
>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://www.nitrc.org/pipermail/mrtrix-discussion/attachments/20140714/448befd2/attachment.html>