[Neuroimaging] Tractography normalization

[JB Poline]

Hi Konstantinos,

Say I want to derive a new atlas from IIT. Can I redistribute my
derived atlas freely ?

cheers
JB

On Tue, Aug 4, 2015 at 11:23 PM, Konstantinos Arfanakis
<arfanakis at iit.edu> wrote:
> Hi JB,
>
> It would help me answer your question if you could give me a very general
> description of what you are planning to generate and how would that be used.
>
> Regards,
> Konstantinos
>
>
>
> On Aug 5, 2015, at 4:54 AM, Eleftherios Garyfallidis
> <garyfallidis at gmail.com> wrote:
>
> Hi JB,
>
> I am not familiar with the restrictions of the license. I think that
> Konstantinos is the best person to answer this question. I am cc'ing him.
>
> You may want to continue this discussion in a different thread as it is a
> bit off topic.
>
> Cheers,
> Eleftherios
>
> On Tue, Aug 4, 2015 at 9:42 PM, JB Poline <jbpoline at gmail.com> wrote:
>>
>> Hi,
>>
>> I was curious about the IIT license: does anyone understand
>>
>> "
>> (2) You may not alter, transform, adapt or build upon the information,
>> images or data;
>> "
>>
>> so : "build upon the information" is a bit vague : I guess you cannot
>> create an atlas or anything from it, you have to use it as it is ? That
>> seems bad - but may be I missed something ?
>>
>> cheers
>>
>> JB
>>
>>
>>
>> On Tue, Aug 4, 2015 at 6:25 PM, Eleftherios Garyfallidis
>> <garyfallidis at gmail.com> wrote:
>>>
>>> Hello,
>>>
>>> On Tue, Aug 4, 2015 at 7:21 PM, Jorge Rudas <jrudascas at gmail.com> wrote:
>>>>
>>>> Thanks for your answer Eleftherios
>>>>
>>>> One questions more...
>>>>
>>> Be happy to ask as many questions as you need until everything is clear.
>>> I am sure you will need
>>> feedback from us to perform such an analysis. That is because although we
>>> are currently working on making
>>> easy workflows, right  now you will need write your own scripts combining
>>> different DIPY tutorials of the
>>> development version.
>>>
>>> Of course I am more than happy to help you with this.
>>>
>>>>
>>>> When you say "then apply the deformation fields to the tractographies",
>>>> what exactly does this mean ?
>>>>
>>> You will generate streamlines and FA maps in the native space of every
>>> subject. Then you can for example register
>>> the FAs to an FA template. After you have performed this registrations
>>> you will also have saved the deformation fields
>>> which were applied to the FAs so that they can be registered to the FA
>>> template. Because the tractographies were
>>> in the same space (native) as the FAs the same deformation fields can be
>>> used to warp them to the FA template space
>>> and in that way your tractographies will also be normalized.
>>>
>>> Cheers,
>>> Eleftherios
>>>
>>> p.s. As an FA template I recommend using the IIT atlas.
>>>
>>>>
>>>> Regards
>>>>
>>>>
>>>> Jorge Rudas
>>>>
>>>>
>>>> 2015-08-04 15:55 GMT-05:00 Eleftherios Garyfallidis
>>>> <garyfallidis at gmail.com>:
>>>>>
>>>>> Hi Jorge,
>>>>>
>>>>> This is a very active research area in DIPY. There are currently two
>>>>> ways:
>>>>>
>>>>> a) You can register FA images together using our image registration
>>>>> functions and then apply the deformation fields to the tractographies.
>>>>>
>>>>> b) Segment bundles from the tractographies (manually or automatically)
>>>>> and register them directly using the SLR. Paper here
>>>>>
>>>>> http://www.ncbi.nlm.nih.gov/pubmed/25987367
>>>>>
>>>>> Cheers,
>>>>> Eleftherios
>>>>>
>>>>>
>>>>>
>>>>> On Tue, Aug 4, 2015 at 4:14 PM, Jorge Rudas <jrudascas at gmail.com>
>>>>> wrote:
>>>>>>
>>>>>> Hi everyone
>>>>>>
>>>>>> Any suggestions for to spatial normalization of tractographys?. I want
>>>>>> compare tractographys at population level.
>>>>>>
>>>>>> regards,
>>>>>>
>>>>>> Jorge Rudas
>>>>>> National University of Colombia
>>>>>>
>>>>>>
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