Mercurial > repos > greg > fast_fiber_tracking
diff fast_fiber_tracking.xml @ 0:4e3d4331fa58 draft
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author | greg |
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date | Tue, 07 Nov 2017 13:48:48 -0500 |
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children | 25e38b59bc8e |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/fast_fiber_tracking.xml Tue Nov 07 13:48:48 2017 -0500 @@ -0,0 +1,42 @@ +<tool id="fast_fiber_tracking" name="Perform fast fiber tracking" version="0.13.0"> + <description>using constrained spherical deconvolution </description> + <requirements> + <requirement type="package" version="0.13.0">dipy</requirement> + </requirements> + <command detect_errors="exit_code"><![CDATA[ +python '$__tool_directory__/fast_fiber_tracking.py' +--drmi_dataset $drmi_dataset +--output_csd_direction_field '$output_csd_direction_field' +--output_det_streamlines '$output_det_streamlines' +--output_fa_map '$output_fa_map' + ]]></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_csd_direction_field" format="png" label="${tool.name}: CSD direction field" /> + <data name="output_det_streamlines" format="png" label="${tool.name}: streamlines" /> + <data name="output_fa_map" format="nifti1" label="${tool.name}: fractional anisotropic" /> + </outputs> + <tests> + <test> + </test> + </tests> + <help> +**What it does** + +Performs fast fiber tracking using constrained spherical deconvolution (CSD) for local reconstruction and generates +deterministic streamlines using the fiber directions (peaks) from CSD and fractional anisotropic (FA) from DTI as a +stopping criteria for the tracking. + +----- + +**Options** + + </help> + <citations> + </citations> +</tool>