diff --git a/README.md b/README.md index 1a93f9d..8f8239a 100644 --- a/README.md +++ b/README.md @@ -6,7 +6,7 @@ Steps: 1. DICOM to NIfTI (BIDS) conversion 2. Processing (spinal cord and lesion segmentation, vertebral labeling) 3. Quality control (QC) + manual compression level labeling -4. Lesion metric computation +4. Lesion metric computation -- not implemented yet ## Table of contents - [1. Getting Started](#1-getting-started) @@ -250,7 +250,7 @@ The rest of the directories and files will be created during the processing; see ## 3. Analysis pipeline -The whole analysis pipeline is implemented in the `process_data.sh` script. +The entire analysis pipeline is orchestrated by the `process_data.sh` script. The script first converts DICOM files to NIfTI (BIDS) format using `dcm2niix`. Then, it processes the data using SCT functions. After running the SCT functions, the script opens FSLeyes to allow the