Citing SCT¶
If you use SCT in your research or as part of your developments, please always cite the main reference.
If you use specific tools such as sct_deepseg_sc or the PAM50
template, please also cite the specific articles
listed in specific references.
Main Reference¶
@article{DeLeener201724,
title = "SCT: Spinal Cord Toolbox, an open-source software for processing spinal cord \{MRI\} data ",
journal = "NeuroImage ",
volume = "145, Part A",
number = "",
pages = "24 - 43",
year = "2017",
note = "",
issn = "1053-8119",
doi = "https://doi.org/10.1016/j.neuroimage.2016.10.009",
url = "https://www.sciencedirect.com/science/article/pii/S1053811916305560",
author = "Benjamin De Leener and Simon Lévy and Sara M. Dupont and Vladimir S. Fonov and Nikola Stikov and D. Louis Collins and Virginie Callot and Julien Cohen-Adad",
keywords = "Spinal cord",
keywords = "MRI",
keywords = "Software",
keywords = "Template",
keywords = "Atlas",
keywords = "Open-source ",
}
Specific References¶
Command Line Tools¶
The table below provides individual references for novel methods used in SCT’s Command-Line Tools.
Note
If you are using white matter/grey matter segmentation tools (sct_deepseg_gm/sct_deepseg) and registration tools (sct_register_to_template/sct_register_multimodal) together as part of a pipeline, please also consider this reference:
Command line script |
References |
---|---|
Perone et al. Spinal cord gray matter segmentation using deep dilated convolutions. Sci Rep 2018 |
|
sct_process_segmentation |
|
sct_propseg |
|
sct_register_multimodal |
|
sct_register_to_template |
|
Template and Atlas¶
The table below provides references relevant to the PAM50 Template used by SCT, including a reference for the template itself, as well as earlier works that the template builds on.
Template/atlas |
References |
---|---|
PAM50 template |
|
MNI-Poly-AMU template |
|
White matter atlas |
|
Probabilistic atlas (AMU40) |
|
Spinal levels |