Mercurial > repos > greg > diffusion_signal_reconstruction
diff diffusion_signal_reconstruction.xml @ 0:fe569aad237c draft
Uploaded
author | greg |
---|---|
date | Sun, 05 Nov 2017 09:30:58 -0500 |
parents | |
children | 4bbb58b9d263 |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/diffusion_signal_reconstruction.xml Sun Nov 05 09:30:58 2017 -0500 @@ -0,0 +1,49 @@ +<tool id="diffusion_signal_reconstruction" name="Reconstruct diffusion signal" version="0.13.0"> + <description>with Tensor model</description> + <requirements> + <requirement type="package" version="0.13.0">dipy</requirement> + </requirements> + <command detect_errors="exit_code"><![CDATA[ +python '$__tool_directory__/diffusion_signal_reconstruction.py' +--drmi_dataset $drmi_dataset +--output_nifti1_evecs '$output_nifti1_evecs' +--output_nifti1_fa '$output_nifti1_fa' +--output_nifti1_md '$output_nifti1_md' +--output_nifti1_rgb '$output_nifti1_rgb' +--output_png_ellipsoids '$output_png_ellipsoids' +--output_png_middle_axial_slice '$output_png_middle_axial_slice' +--output_png_odfs '$output_png_odfs' + ]]></command> + <inputs> + <param name="drmi_dataset" type="select" label="dRMI dataset"> + <option value="stanford_hardi" selected="true">stanford_hardi</option> + <option value="sherbrooke_3shell">sherbrooke_3shell</option> + </param> + </inputs> + <outputs> + <data name="output_png_odfs" format="png" label="${tool.name}: orientation distribution functions" /> + <data name="output_png_ellipsoids" format="png" label="${tool.name}: colored ellipsoids" /> + <data name="output_png_middle_axial_slice" format="png" label="${tool.name}: middle axial slice without (left) and with (right) diffusion weighting" /> + <data name="output_nifti1_fa" format="nifti1" label="${tool.name}: fractional anisotropye" /> + <data name="output_nifti1_evecs" format="nifti1" label="${tool.name}: eigen vectorse" /> + <data name="output_nifti1_evecs" format="nifti1" label="${tool.name}: mean diffusivitye" /> + <data name="output_nifti1_rgb" format="nifti1" label="${tool.name}: RGB-mape" /> + </outputs> + <tests> + <test> + </test> + </tests> + <help> +**What it does** + +The diffusion tensor model is a model that describes the diffusion within a voxel. It demonstrates +the utility of diffusion MRI in characterizing the micro-structure of white matter tissue and of the +biophysical properties of tissue, inferred from local diffusion properties. +----- + +**Options** + + </help> + <citations> + </citations> +</tool>