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    113 repositories

    • cage2_automation

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Aug 2, 2025Aug 2, 2025

    • colopaint3D

      Public
      Supporting scripts and code for Cell Painting in 3D spheroids
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Jul 31, 2025Jul 31, 2025

    • pharmbio_LaTeX_templates

      Public
      A series of LaTeX templates used by us
      TeX
      •0•0•0•0•Updated Jul 24, 2025Jul 24, 2025

    • pharmbio-web

      Public
      The Static (Hugo) website for pharmb.io
      JavaScript
      •8•3•0•4•Updated Jul 1, 2025Jul 1, 2025

    • pharmbio-notebook

      Public
      Docker containers for interactive notebook environments for rancher cluster
      Dockerfile
      •1•2•0•1•Updated Jun 29, 2025Jun 29, 2025

    • cp_pipeline

      Public
      Python
      •0•0•0•0•Updated Jun 22, 2025Jun 22, 2025

    • pipelinegui

      Public
      JavaScript
      •0•0•1•0•Updated Jun 19, 2025Jun 19, 2025

    • plaid

      Public
      PLAID (Plate Layouts using Artificial Intelligence Design) is a flexible constraint-programming model representing the Plate Layout Design problem.
      artificial-intelligenceconstraint-programmingplaidexperimental-designmicroplate-designmultiplate-layout-design
      Jupyter Notebook
      •4•17•0•2•Updated Jun 17, 2025Jun 17, 2025

    • imagedb

      Public
      Image database for pharmbio microscope images
      JavaScript
      •1•5•9•3•Updated Jun 13, 2025Jun 13, 2025

    • helm-charts

      Public
      Mustache
      •0•1•1•0•Updated Jun 11, 2025Jun 11, 2025

    • robotlab

      Public
      Cell painting and imaging with robots
      Python
      •
      MIT License
      •1•12•4•0•Updated Jun 10, 2025Jun 10, 2025

    • sc_celldeath

      Public
      Analysis scripts for single-cell celldeath publication
      Jupyter Notebook
      •0•1•0•0•Updated Jun 2, 2025Jun 2, 2025

    • CellViewer

      Public
      CellViewer, a customizable, zoomable widget for fluorescent microscopy images
      Jupyter Notebook
      •0•2•0•0•Updated May 26, 2025May 26, 2025

    • big-data_deeplearning

      Public
      Big data course, Deep learning repo
      Jupyter Notebook
      •0•2•0•0•Updated May 21, 2025May 21, 2025

    • big-data_course

      Public
      Material for the Big Data in life science course
      TeX
      •3•2•0•0•Updated May 9, 2025May 9, 2025

    • phospholipidosis_project

      Public
      Data analysis and models for predicting phospholipidosis readouts from cell painting
      Jupyter Notebook
      •0•1•0•0•Updated May 6, 2025May 6, 2025

    • squid

      Public
      C
      •41•3•6•0•Updated Mar 21, 2025Mar 21, 2025

    • DeepLearningTutorials

      Public
      Deep Learning Notebooks adapted for some of our courses by David Holmberg - including PB_SEQ, ULLA, Ai4DD etc
      Jupyter Notebook
      •1•0•0•0•Updated Mar 13, 2025Mar 13, 2025

    • cppipeline2

      Public
      version 2 of cppipeline
      Python
      •0•0•0•0•Updated Mar 3, 2025Mar 3, 2025

    • lmu-student

      Public
      Deep Learning Notebooks adapted for some of our courses by David Holmberg - including PB_SEQ, ULLA, Ai4DD etc
      Jupyter Notebook
      •0•0•0•0•Updated Feb 3, 2025Feb 3, 2025

    • lmm-student

      Public
      Deep Learning Notebooks adapted for some of our courses by David Holmberg - including PB_SEQ, ULLA, Ai4DD etc
      Jupyter Notebook
      •0•0•0•0•Updated Feb 3, 2025Feb 3, 2025

    • ConformalPrediction_Sofia

      Public
      0•0•0•0•Updated Dec 21, 2024Dec 21, 2024

    • ptp

      Public
      JavaScript
      •1•0•2•0•Updated Dec 19, 2024Dec 19, 2024

    • sciluigi

      Public
      A light-weight wrapper library around Spotify's Luigi workflow library to make writing scientific workflows more fluent, flexible and modular
      workflowworkflow-enginescientific-workflowsluigi
      Python
      •
      MIT License
      •56•335•21•3•Updated Dec 10, 2024Dec 10, 2024

    • kubeflow-pipelines

      Public
      Python
      •1•3•0•1•Updated Aug 2, 2024Aug 2, 2024

    • Assignment_3a_LeukemiaCells

      Public
      Easier paths leukemia cells BDLS Assignment 3.a
      0•0•0•0•Updated Jun 10, 2024Jun 10, 2024

    • SegMine

      Public
      Playground for Segmentation and Data-mining
      MIT License
      •1•0•0•0•Updated May 8, 2024May 8, 2024

    • rstudio-docker

      Public
      Dockerfile for rstudio server with python support
      Dockerfile
      •0•0•0•0•Updated May 1, 2024May 1, 2024

    • nw-cp

      Public
      A master thesis on using Graph Neural Networks and Network Analysis approach in morphological profiling of chemical perturbated cells
      HTML
      •
      MIT License
      •0•1•0•0•Updated Apr 4, 2024Apr 4, 2024

    • conformal-eval

      Public
      Refactored version of the Plot_utils library, for generating a single installable distribution
      Python
      •
      MIT License
      •2•2•0•0•Updated Apr 3, 2024Apr 3, 2024