Simon Dirmeier

Computer scientist, bioinformatician, future statistician.
simon.dirmeier @ web.de

About

I am a doctoral student in Computational Biology at the CBG at ETH. My work revolves mainly around developing novel probabilistic graphical models for the analysis of large-scale genetic perturbation screens. Apart from that, I have expertise and am broadly interested in machine learning, (nonparametric) Bayesian statistics, causal inference and probabilistic programming. I am literate in multiple programming languages, have experience with many machine learning and statistical libraries, and spend a lot of my free time contributing to OSS projects. Before doing a PhD, I've studied Bioinformatics (M. Sc. and B. Sc.) at TU Munich and LMU Munich, primarily focusing on graph theory and algorithmics.

In my free time I play the guitar, like reading philosophy and work on extending my Jazz collection!

Contact

Click here to send me a mail.

Publications

  • S Dirmeier, N Beerenwinkel (2019). Structured hierarchical models for probabilistic inference from perturbation screening data.
    bioRxiv. doi:10.1101/848234
  • S Dirmeier, M Emmenlauer, C Dehio, N Beerenwinkel (2019). PyBDA: a command line tool for automated analysis of big biological data sets.
    BMC Bioinformatics 20(564). doi:10.1186/s12859-019-3087-8
  • B Gruning, R Dale, A Sjodin, BA Chapman, J Rowe & The Bioconda Team (2018). Bioconda: sustainable and comprehensive software distribution for the life sciences.
    Nature Methods 15(7). doi:10.1038/s41592-018-0046-7
  • S Dirmeier (2018). datastructures: An R package for organisation and storage of data.
    The Journal of Open Source Software 3(1). doi:10.21105/joss.00910
  • S Dirmeier, C Fuchs, NS Mueller, FJ Theis (2017). netReg: network-regularized linear models for biological association studies.
    Bioinformatics 34(5). doi:10.1093/bioinformatics/btx677
  • L Geistlinger, G Csaba, S Dirmeier, R K├╝ffner, R Zimmer (2013). A comprehensive gene regulatory network for the diauxic shift in Saccharomyces cerevisiae.
    Nucleic Acids Research 41(18). 10.1093/nar/gkt631

Not-a-blog

Some notebooks and notes on statistics, computer science and philosophy, and some projects I've been working on (R/Python/C++).