Appendix A — Acknowledgments

A.1 Authors and contributors

The following individuals have contributed to developing the contents of this book (in alphabetical order):

• Peiying Cai, University of Zurich, Zurich, Switzerland
• Leonardo Collado-Torres, Lieber Institute for Brain Development, Baltimore, MD, United States
• Helena L. Crowell, National Center for Genomic Analysis, Barcelona, Spain
• Estella Yixing Dong, CHUV and University of Lausanne, Lausanne, Switzerland
• Martin Emons, University of Zurich, Zurich, Switzerland
• Shila Ghazanfar, University of Sydney, Sydney, Australia
• Samuel Gunz, University of Zurich, Zurich, Switzerland
• Boyi Guo, Johns Hopkins University, Baltimore, MD, United States
• Stephanie C. Hicks, Johns Hopkins University, Baltimore, MD, United States
• Artür Manukyan, Max Delbrück Center for Molecular Medicine, Berlin, Germany
• Dario Righelli, University of Naples Federico II, Italy
• Keri Martinowich, Lieber Institute for Brain Development, Baltimore, MD, United States
• Kristen Maynard, Lieber Institute for Brain Development, Baltimore, MD, United States
• Pratibha Panwar, University of Sydney, Sydney, Australia
• Davide Risso, University of Padova, Italy
• Mark D. Robinson, University of Zurich, Zurich, Switzerland
• Jieran Sun, CHUV and University of Lausanne, Lausanne, Switzerland
• Michael Totty, Johns Hopkins University, Baltimore, MD, United States
• Lukas M. Weber, Boston University, Boston, MA, United States

A.2 Bioconductor

We are grateful to members of the Bioconductor Core Team for assistance with the creation and maintenance of the book and its infrastructure, specifically (in alphabetical order):

• Vince Carey, Harvard Medical School, Boston, MA, United States
• Lori Ann (Shepherd) Kern, Roswell Park Comprehensive Cancer Center, Buffalo, NY, United States
• Alexandru Mahmoud, Harvard Medical School, Boston, MA, United States

We are also grateful to the Bioconductor community for ongoing feedback, discussion, and additional development assistance.

A.3 BiocBook

This book is built using the BiocBook package, developed by Jacques Serizay for building Quarto books with Bioconductor. More details on BiocBook can be found in the BiocBook book.

A.4 Additional acknowledgements and resources

• This book is inspired by the Orchestrating Single-Cell Analysis with Bioconductor (OSCA) book (Amezquita et al. 2020) on analysis workflows for single-cell data using R and Bioconductor.

• Details on data preprocessing procedures for 10x Genomics Visium data can be found in our related online book Visium data preprocessing.

A.5 Feedback and suggestions

Feedback and suggestions may be provided as GitHub issues for discussion with the maintainers.

References

Amezquita, Robert A., Aaron T. L. Lun, Etienne Becht, Vince J. Carey, Lindsay N. Carpp, Ludwig Geistlinger, Federico Marini, et al. 2020. “Orchestrating Single-Cell Analysis with Bioconductor.” Nature Methods 17: 137–45. https://doi.org/10.1038/s41592-019-0654-x.