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GeezerVison is showing github.com — Department of Microbiome Science at the MPI for Biology

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  1. Struo2 Struo2 Public

    Scalable creating/updating of metagenome profiling databases

    Jupyter Notebook 62 9

  2. Struo Struo Public

    Ley Lab MetaGenome Profiler DataBase generator

    Jupyter Notebook 48 4

  3. SynTracker SynTracker Public

    SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same species) using genome synteny.

    Python 44 7

  4. DeepMAsED DeepMAsED Public

    Deep learning for Metagenome Assembly Error Detection

    Jupyter Notebook 26 5

  5. pyTecanFluent pyTecanFluent Public

    Python interface to TECAN Fluent liquid handling robot

    Python 23 2

  6. endoR endoR Public

    Code and manual of the endoR R-package (Ruaud et al, in preparation).

    Jupyter Notebook 11

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  • FlaPro Public

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    leylabmpi/FlaPro's past year of commit activity
    Jupyter Notebook 1 MIT 2 0 0 Updated Oct 27, 2026
  • SynTracker Public

    SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same species) using genome synteny.

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    leylabmpi/SynTracker's past year of commit activity
    Python 44 7 0 7 Updated Oct 19, 2026
  • microc_paper_code Public

    Repository containing all the code necessary to reproduce the results and figures in the microc paper

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    leylabmpi/microc_paper_code's past year of commit activity
    Jupyter Notebook 0 GPL-3.0 0 0 0 Updated Oct 12, 2026
  • StrainVis Public

    A Python-based web application for interactive visual analysis of strain-tracking methods

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    leylabmpi/StrainVis's past year of commit activity
    Python 5 0 0 0 Updated Oct 8, 2026
  • nearestbalance Public

    A mirror of the Nearest Balance R package (Odintsova et al, 2022; doi: 10.1128/msystems.00155-22)

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    leylabmpi/nearestbalance's past year of commit activity
    R 0 0 0 0 Updated Sep 9, 2026
  • uHEAT Public

    R code for analysis presented in the uHEAT manuscript

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    leylabmpi/uHEAT's past year of commit activity
    R 0 0 0 0 Updated Jun 24, 2026
  • SynTrackerVis Public

    SynTrackerVis: a Python-based web application for interactive visual analysis of SynTracker's results

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    leylabmpi/SynTrackerVis's past year of commit activity
    Python 0 0 0 0 Updated Nov 13, 2025
  • sel_trans_behavior Public

    Essential code of the Suzuki, T. et al "Selection and transmission of the gut microbiome alone can shift mammalian behavior" publication.

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    leylabmpi/sel_trans_behavior's past year of commit activity
    Jupyter Notebook 0 GPL-3.0 2 0 0 Updated Sep 3, 2025
  • Struo2 Public

    Scalable creating/updating of metagenome profiling databases

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    leylabmpi/Struo2's past year of commit activity
    Jupyter Notebook 62 MIT 9 19 0 Updated Jun 25, 2025
  • TUK_db_shiny Public

    Shiny db viewer for TUK data

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    leylabmpi/TUK_db_shiny's past year of commit activity
    R 0 0 0 0 Updated Jun 11, 2025
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