Jakob Troidl

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I am a Ph. D. candidate in computer science at Harvard University, advised by Hanspeter Pfister. I am broadly interested in data visualization and applied machine learning, especially with applications in connectomics. Specifically, my research focuses on building scalable interactive visual analysis tools and representation learning approaches to analyze the hidden architecture of the brain. Currently, I am working with Srini Turaga at HHMI Janelia as a visiting researcher. Also, I’ll be working as a ML Fellow at E11.bio this summer.

I hold a M. Sc. in visual computing from TU Wien, Austria and a B. Sc. (with Honors) in medical informatics from the same university. I was born and raised in the beautiful town of Regensburg in Germany. On the side, I am a member of beetsbook.club.

news

Mar 14, 2025 💬 I will join E11.bio this summer as a ML fellow to work on automated connectome proofreading.
Dec 21, 2024 💬 I gave a talk on automated connectome proofreading at E11.bio, TU Wien and Google Research.
Nov 24, 2024 📝 New preprint on automated proofreading and typing of connectomes using global neuron shape reasoning.
Oct 15, 2024 💬 I presented at the IEEE VIS Doctoral Colloquium in Florida (remote).
Jun 25, 2024 💬 I gave a talk on neural implicit volume reconstruction at IST Austria.
Jun 23, 2024 💬 I gave a talk on interactive motif analysis at the international connectomics conference in Berlin.
May 15, 2024 🧠 I started as a visiting researcher in the Turaga lab at HHMI Janelia.
May 01, 2024 📝 New preprint on neural implicit isotropic volume reconstruction.
Feb 02, 2024 💬 I gave a talk on human-centered computing in connectomics at Harvard Medical School.

selected publications

  1. gnsr.png
    Global Neuron Shape Reasoning with Point Affinity Transformers
    Jakob Troidl, Johannes Knittel , Wanhua Li , and 3 more authors
    bioarxiv, 2025
  2. niiv.png
    niiv: Interactive Self-supervised Neural Implicit Isotropic Volume Reconstruction
    Jakob Troidl, Yiqing Liang , Johanna Beyer , and 5 more authors
    bioarxiv, 2024
  3. h01.jpeg
    A petavoxel fragment of human cerebral cortex reconstructed at nanoscale resolution
    Alexander Shapson-Coe , Michał Januszewski , Daniel R. Berger , and 28 more authors
    Science, 2024
  4. vimo-teaser-02.png
    Vimo: Visual Analysis of Neuronal Connectivity Motifs
    Jakob Troidl, Simon Warchol , Jinhan Choi , and 8 more authors
    IEEE Transactions on Visualization and Computer Graphics (IEEE VIS), 2023
  5. connectomics_star.png
    A Survey of Visualization and Analysis in High-Resolution Connectomics
    Johanna Beyer* , Jakob Troidl*, Saeed Boorboor , and 3 more authors
    In Computer Graphics Forum , 2022