[Neuroimaging] [DIPY] track simple (not DWI) vector field data

[francesco giardini]

Hi,
I'm a complete novice at the field of Dipy so, first, thank you very much
to all of you.
I would like to exploit Dipy tractography tools to draw my own data (Not
DWI), but I have some problem about the fiber directions representation.

I work with 3D images of heart muscle tissue, and I developed a simple code
that extract the fibers orientation by means of a Structure Tensor
Analysis.

So, I have a 3d matrix 'R' (numpy.ndarray); every R(z, y, x) element
contains:
- three eigenvalues (3x1 matrx)
- three R3 eigenvectors (3x3 matrix)
- others informations (for example, the Fractional Anisotropy, useful for
the stop criterium)

In the attached, there is a one-frame example (only one XY plane analyzed)
of the orientations maps, plotted with matplotlib and mayavi.

I'm trying to understand how to format my data to generate the streamlines.

I have reproduced some examples.
Here (
http://nipy.org/dipy/examples_built/tracking_quick_start.html#example-tracking-quick-start)
i find that csd_peaks contains the vectors informations (the source of the
tractography process?)

while here (
http://nipy.org/dipy/examples_built/reconst_dti.html#example-reconst-dti)
seems that tenfit contains the same vector field.

I'm reading also the documentation about dipy.tracking.local.LocalTracking
and dipy.tracking.local.DirectionGetter.

How I can merge my data with the Dipy structures, to generate and display
my streamlines?

I'am looking forward to your reply. Thank you very much.
Francesco Giardini

-- 
Dr. Francesco Giardini (giardini at lens.unifi.it)

LENS - European Laboratory for Non-linear Spectroscopy
Via Nello Carrara 1, 50019 Sesto Fiorentino (FI), Italy
University of Florence - Biomedical Engineering

Tel. 055 457 2477 (off.)
http://www.lens.unifi.it
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