Analysis pipelines

One of the main applications of SCT is building image analysis pipelines using SCT’s Command-Line Tools. To provide examples of this, the SCT team maintains the SCT Pipeline GitHub organization, which contains analysis pipelines used in NeuroPoly-affiliated research projects. These SCT Pipeline projects demonstrate how SCT’s command-line tools can be successfully applied to real-world MRI imaging data, and cover areas such as:

Feel free to use, share and contribute on this organization!