Citation

If SMINT contributes to your research, please cite the paper that describes it:

Kriel J, Moffet JJD, Lu T, Fatunla OE, Narayana VK, Valkovic A, Maluenda A, McConville MJ, Tsui E, Whittle JR, Best SA, Freytag S. An integrative spatial multi-omic workflow for unified analysis of tumor tissue. Cell Reports Methods 6(2), 101306 (2026). doi:10.1016/j.crmeth.2026.101306 · Full text

The same citation is in CITATION.cff, so GitHub's Cite this repository button (in the sidebar of the repository page) gives it in APA and BibTeX.

BibTeXAPA

@article{kriel2026smint,
  author  = {Kriel, Jurgen and Moffet, Joel J. D. and Lu, Tianyao and
             Fatunla, Oluwaseun E. and Narayana, Vinod K. and Valkovic, Adam and
             Maluenda, Ana and McConville, Malcolm J. and Tsui, Ellen and
             Whittle, James R. and Best, Sarah A. and Freytag, Saskia},
  title   = {An integrative spatial multi-omic workflow for unified analysis
             of tumor tissue},
  journal = {Cell Reports Methods},
  volume  = {6},
  number  = {2},
  pages   = {101306},
  year    = {2026},
  doi     = {10.1016/j.crmeth.2026.101306}
}

Kriel, J., Moffet, J. J. D., Lu, T., Fatunla, O. E., Narayana, V. K., Valkovic, A., Maluenda, A., McConville, M. J., Tsui, E., Whittle, J. R., Best, S. A., & Freytag, S. (2026). An integrative spatial multi-omic workflow for unified analysis of tumor tissue. Cell Reports Methods, 6(2), 101306. https://doi.org/10.1016/j.crmeth.2026.101306

To cite a specific version of the software as well, use Kriel, J. SMINT - Spatial Multi-Omics Integration Toolkit (Version 2.0.0) [Computer software]. https://github.com/JurgenKriel/SMINT.

When you use a specific method, please also cite the tools SMINT builds on:

• Cellpose for segmentation — cellpose.org lists the papers for Cellpose 3 and Cellpose-SAM (Cellpose 4).
• STalign for sequential-section LDDMM registration — github.com/JEFworks-Lab/STalign.

SMINT is released under the MIT licence.