Hands-on: Using ``sct_propseg`` on T2 data ########################################## Run the following command to process the image: .. code:: sh sct_propseg -i t2.nii.gz -c t2 -qc ~/qc_singleSubj :Input arguments: - ``-i`` : Input image - ``-c`` : Contrast of the input image - ``-qc`` : Directory for Quality Control reporting. QC reports allow us to evaluate the segmentation slice-by-slice :Output files/folders: - ``t2_seg.nii.gz`` : 3D binary mask of the segmented spinal cord Once the command has finished, at the bottom of your terminal there will be instructions for inspecting the results using :ref:`Quality Control (QC) ` reports. Optionally, If you have :ref:`fsleyes-instructions` installed, a ``fsleyes`` command will printed as well. .. figure:: https://raw.githubusercontent.com/spinalcordtoolbox/doc-figures/master/spinalcord-segmentation/t2_propseg_before_after.png :align: center