[Mristudio-users] fiber tracking

[susumu mori]

The statistics in the ROI panel is to measure pixel values inside the ROI.
It is just a simple ROI-based quantification.

In the fiber panel, you draw ROI to create tract paths. Then the
quantification is based on pixel values of the reconstructed fibers.

On Fri, Jan 8, 2010 at 3:47 PM, Sona Saksena <saksena.sona at gmail.com> wrote:

> Hello,
>
> After placing the ROI, the statistics for the mostly recent ROI is shown in
> the fiber control panel. What is the difference between the statistics after
> pressing the "Go button" in the "Fiber Statistics" option and the most
> recent statisitcs in the ROI control panel. What should I take for my final
> calculations and results.
>
> Please do suggest.
>
> thanks
>
> regards
>
> sona
>
> On Fri, Jan 8, 2010 at 12:53 PM, susumu mori <susumu at mri.jhu.edu> wrote:
>
>> Hi Sona,
>>
>> There is detailed description about the "flip" function in the manual. the
>> truth is, nobody is sure about the sign because scanners can change it
>> dynamically depending on your scan protocol.
>> There is a way to rigorously solve this problem, but it is very difficult
>> and that's why we just empirically solve it by checking all 4 options (no
>> check, x, y, z flipped). Good news is, if the signs are wrong, tracking
>> doesn't make sense.
>>
>>
>> On Fri, Jan 8, 2010 at 10:34 AM, Sona Saksena <saksena.sona at gmail.com>wrote:
>>
>>> Hi,
>>>
>>> Thanks for your suggestion. There is a option in the fiber tracking
>>> parameters "Flip Eigen Vector". Do I have to use this check box?
>>>
>>> Actually we have applied gradients in 26 directions (GE Scanner, 3Tesla).
>>> I am not sure about the sign of all of the components in the gradient
>>> table.  What shall I do?
>>>
>>> This is the gradient table.
>>>
>>>
>>> 0: 0.000000, 0.000000, 0.000000
>>>
>>> 1: 1.000000, 0.000000, 0.000000
>>>
>>> 2: 0.849000, 0.528000, 0.000000
>>>
>>> 3: -0.108000, 0.565000, 0.818000
>>>
>>> 4: 0.884000, -0.345000, -0.315000
>>>
>>> 5: -0.003000, -0.736000, 0.677000
>>>
>>> 6: -0.868000, -0.238000, 0.436000
>>>
>>> 7: 0.799000, 0.370000, 0.475000
>>>
>>> 8: -0.162000, 0.987000, 0.000000
>>>
>>> 9: 0.866000, -0.129000, 0.483000
>>>
>>> 10: -0.212000, -0.936000, 0.281000
>>>
>>> 11: 0.068000, -0.892000, -0.446000
>>>
>>> 12: 0.550000, -0.544000, -0.634000
>>>
>>> 13: -0.435000, -0.422000, 0.795000
>>>
>>> 14: -0.599000, 0.780000, 0.182000
>>>
>>> 15: -0.525000, 0.030000, -0.851000
>>>
>>> 16: -0.600000, -0.688000, 0.409000
>>>
>>> 17: 0.653000, -0.060000, -0.755000
>>>
>>> 18: 0.207000, -0.076000, -0.975000
>>>
>>> 19: -0.413000, -0.699000, -0.584000
>>>
>>> 20: -0.436000, 0.822000, -0.366000
>>>
>>> 21: 0.462000, 0.874000, 0.148000
>>>
>>> 22: -0.503000, 0.488000, -0.713000
>>>
>>> 23: 0.824000, -0.530000, 0.202000
>>>
>>> 24: 0.297000, 0.349000, 0.889000
>>>
>>> 25: -0.040000, 0.318000, -0.947000
>>>
>>>
>>>
>>> Please do suggest?
>>>
>>>
>>>
>>> regards
>>>
>>>
>>>
>>> sona
>>>
>>>
>>>
>>>
>>>   On Thu, Jan 7, 2010 at 3:32 PM, susumu mori <susumu at mri.jhu.edu>wrote:
>>>
>>>> Hi Sona,
>>>>
>>>> I suggest you to go through the manual section in www.mristudio.org.
>>>> There you can find a user's manual for DtiStudio. It gives you the
>>>> step-by-step procedure for tensor calculation and fiber tracking.
>>>>
>>>>   On Thu, Jan 7, 2010 at 2:48 PM, Sona Saksena <saksena.sona at gmail.com>wrote:
>>>>
>>>>>   Hello,
>>>>>
>>>>> Please can you tell me steps of performing fiber tracking in brain
>>>>> tumor patients using DTI studio. The DTI data is on 3T GE scanner with
>>>>> gradients applied in 26 directions. How to generate the reconstructed
>>>>> fibres?
>>>>>
>>>>> thanks
>>>>>
>>>>> regards
>>>>>
>>>>> Sona Saksena
>>>>>
>>>>>
>>>>>
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>>>>>
>>>>
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>>>
>>>
>>> --
>>> Sona Saksena
>>> Ph. D Scholar
>>>
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>>
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>
>
> --
> Sona Saksena
> Ph. D Scholar
>
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