Citation & License

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Citation & License#

Citation#

If you use spatialrefinery, please cite the Phoenix paper it was built for [TGP+26]:

@article{tran/gindra2026.04.25.720812,
    author = {Tran, Manuel and Gindra, Rushin H. and Putze, Philipp and Senbai, Kang and Palla, Giovanni and Kos, Tina and Falcomat{\`a}, Chiara and Wang, Chen and Guo, Ruifeng (Ray) and Boxberg, Melanie and Berclaz, Luc M. and Lindner, Lars H. and Bergmayr, Linda and Kn{\"o}sel, Thomas and Jurmeister, Philipp and Klauschen, Frederick and Homicsko, Krisztian and Gottardo, Raphael and Eckstein, Markus and Matek, Christian and Mock, Andreas and Theis, Fabian J. and Saur, Dieter and Peng, Tingying},
    title = {Pan-cancer virtual spatial transcriptomics from routine histology with Phoenix},
    year = {2026},
    journal = {bioRxiv},
    doi = {https://doi.org/10.64898/2026.04.25.720812},
}

spatialrefinery also builds on SpatialData and spatialdata-io; if your work relies on the underlying data model, please also cite [VBH+23] (see references).

License#

spatialrefinery is released under the BSD 3-Clause License.

BSD 3-Clause License

Copyright (c) 2026, Rushin Gindra, Manuel Tran

Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:

1. Redistributions of source code must retain the above copyright notice, this
   list of conditions and the following disclaimer.

2. Redistributions in binary form must reproduce the above copyright notice,
   this list of conditions and the following disclaimer in the documentation
   and/or other materials provided with the distribution.

3. Neither the name of the copyright holder nor the names of its
   contributors may be used to endorse or promote products derived from
   this software without specific prior written permission.

THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

See the full text in LICENSE.

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