[tmedani]

Dear Brainsuite team,

I’m using the Brainsuite with the command line to process DWI data and generate the tensors.

I have a script and I’m wondering if it’s possible to call the Tracktography module from the command line?
(from the *.eig files)

Also, I would like to export the results as TRK files (http://trackvis.org/docs/?subsect=fileformat).

Is there any command line to use for this purpose?

Thank you in advance for your help.

Best regards
Takfarinas

[Anonymous]

Hi tmedani

Did you get all the previous outputs by command line for Cortical Extraction and SVReg?

[GR Group]

Tools such as MRtrix3 or FSL can perform tractography from the command line. Before performing tractography, use commands such as token in MRtrix3 to process your diffusion data and create a tractogram. Save the results in.trk . or.tck formats for exporting, and use tools like TrackVis to visualize them.

[peolsolutions]

Tractography is a technique used in neuroimaging to visualize and analyze the pathways of white matter tracts in the brain, typically using data from diffusion tensor imaging (DTI). It enables researchers and clinicians to study brain connectivity and structural abnormalities. Command-line tools (CMD) can be employed to process and visualize tractography data efficiently. Once the analysis is complete, results can be exported into various formats, such as 3D images or statistical maps, for further interpretation, sharing, or integration into other software platforms for research or clinical use.

[IndianPhotoAcademy]

Utilize programs such as FSL (probtrackx2) or MRtrix3 (tckgen) to conduct tractography from the command line. Make sure the proper masks and preprocessed diffusion data are available. MRtrix3 exports results as.tck files, which can be converted to.vtk files using tckconvert. Check the –output flags for FSL. Visually verify the results after post-processing.

[Author]

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