I am a PhD student in the group of Fabian Theis, at the Computational Health Center, Helmholtz Munich, Germany, and the Munich School for Data Science. I am also co-founder and core developer of scverse.
vitae / scholar / github / linkedin
I am interested in Machine Learning and Software for Spatial Biology.
I am the co-lead developer of the following open-source Python packages:
- Moscot: tools for Optimal Transport applications in Single Cell Genomics.
- SpatialData: a data format and ecosystem for Spatial Omics Data.
- Squidpy: analysis toolkit for Spatial Transcriptomics data.
News
- [October 2023] I am presenting a poster on Moscot at Single Cell Genomics 2023 in Engelberg, Switzerland.
- [July 2023] I am presenting a poster on Moscot and SpatialData at the Human Cell Atlas General Meeting 2023, in Toronto.
- [June 2023] I am joining the BioML team, at Microsoft Research New England in Boston, for 3 months.
- [February 2023] Talk at the Statistical Methods for Post Genomic Data workshop, Ghent, 2022.
- [December 2022] Contributed talk at NeurIPS 2022 - LMRL workshop - Modeling Single-Cell Dynamics Using Unbalanced Parameterized Monge Maps.
- [September 2022] Talk at the ECCB 2022 - Workshop on Spatial Transcriptomics and cell-cell communication modelling.
- [August 2022] Contributed to workshop on Spatial Omics Data Analysis 2022.
- [July 2022] Poster at ICML 2022 - Workshop on Computational Biology - Uncertainty Quantification for Atlas-Level Cell Type Transfer.
- [May 2022] Organized virtual workshop Spatial transcriptomics data analysis in Python Single Cell Omics Germany.
- [April 2022] Instructor at the Swiss Institute for Bioinformatics course on Advanced topics in single-cell analysis in Basel.