Repositories list

• repuragent

  Public
  Multi-agentic AI system for Drug Repurposing

  Jupyter Notebook

  •00 forks•1818 stars•00 issues•00 pull requests•Updated Apr 19, 2026Apr 19, 2026

• cage2_automation

  Public
  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 16, 2026Apr 16, 2026

• big-data_course

  Public
  Material for the Big Data in life science course

  TeX

  •33 forks•44 stars•00 issues•00 pull requests•Updated Apr 15, 2026Apr 15, 2026

• repuragent-web

  Public
  AI Agent for Drug Repurposing

  Jupyter Notebook

  •00 forks•11 star•00 issues•00 pull requests•Updated Apr 11, 2026Apr 11, 2026

• squid

  Public
  C

  •5252 forks•33 stars•66 issues•00 pull requests•Updated Apr 10, 2026Apr 10, 2026

• robotlab

  Public
  Cell painting and imaging with robots

  Python

  •

  MIT License

  •11 fork•1313 stars•44 issues•00 pull requests•Updated Apr 9, 2026Apr 9, 2026

• pharmbio-web

  Public
  The Static (Hugo) website for pharmb.io

  JavaScript

  •77 forks•33 stars•00 issues•55 pull requests•Updated Mar 31, 2026Mar 31, 2026

• imagedb

  Public
  Image database for pharmbio microscope images

  JavaScript

  •00 forks•55 stars•99 issues•33 pull requests•Updated Mar 24, 2026Mar 24, 2026

• cppipeline2

  Public
  version 2 of cppipeline

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 18, 2026Mar 18, 2026

• s3uploader

  Public
  service that uploads images to s3

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 2, 2026Mar 2, 2026

• cplogd

  Public
  Code related to the conformal prediction log D project

  CSS

  •11 fork•22 stars•00 issues•22 pull requests•Updated Mar 2, 2026Mar 2, 2026

• pipelinegui

  Public
  JavaScript

  •00 forks•00 stars•11 issue•00 pull requests•Updated Feb 21, 2026Feb 21, 2026

• cp_pipeline

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 19, 2026Feb 19, 2026

• colopaint3D

  Public
  Supporting scripts and code for Cell Painting in 3D spheroids

  Jupyter Notebook

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 19, 2025Dec 19, 2025

• specs-mcp-server

  Public
  MCP server for SPECS dataset

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 16, 2025Dec 16, 2025

• plaid

  Public
  PLAID (Plate Layouts using Artificial Intelligence Design) is a flexible constraint-programming model representing the Plate Layout Design problem.

  artificial-intelligenceconstraint-programmingplaid+ 3

  artificial-intelligenceconstraint-programmingplaidexperimental-designmicroplate-designmultiplate-layout-design

  Jupyter Notebook

  •

  Apache License 2.0

  •55 forks•1717 stars•00 issues•22 pull requests•Updated Nov 27, 2025Nov 27, 2025

• ULLA_AIinDD

  Public
  ULLA AI in Drug Discovery course material

  TeX

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 17, 2025Nov 17, 2025

• DeepLearningTutorials

  Public
  Deep Learning Notebooks adapted for some of our courses by David Holmberg - including PB_SEQ, ULLA, Ai4DD etc

  Jupyter Notebook

  •11 fork•00 stars•00 issues•00 pull requests•Updated Nov 9, 2025Nov 9, 2025

• lmm-student

  Public
  Deep Learning Notebooks adapted for some of our courses by David Holmberg - including PB_SEQ, ULLA, Ai4DD etc

  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 6, 2025Nov 6, 2025

• pharmbio-notebook

  Public
  Docker containers for interactive notebook environments for rancher cluster

  Dockerfile

  •11 fork•22 stars•00 issues•11 pull request•Updated Sep 8, 2025Sep 8, 2025

• sarscov2-phenomics-repurposing

  Public
  This repository contains code and data associated with the manuscript "Morphological cell profiling for drug repurposing against SARS-CoV-2 infection"

  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 5, 2025Sep 5, 2025

• helm-charts

  Public
  Mustache

  •00 forks•11 star•11 issue•00 pull requests•Updated Aug 26, 2025Aug 26, 2025

• pharmbio_LaTeX_templates

  Public
  A series of LaTeX templates used by us

  TeX

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jul 24, 2025Jul 24, 2025

• sc_celldeath

  Public
  Analysis scripts for single-cell celldeath publication

  Jupyter Notebook

  •00 forks•22 stars•00 issues•00 pull requests•Updated Jun 2, 2025Jun 2, 2025

• CellViewer

  Public
  CellViewer, a customizable, zoomable widget for fluorescent microscopy images

  Jupyter Notebook

  •00 forks•22 stars•00 issues•00 pull requests•Updated May 26, 2025May 26, 2025

• big-data_deeplearning

  Public
  Big data course, Deep learning repo

  Jupyter Notebook

  •00 forks•22 stars•00 issues•00 pull requests•Updated May 21, 2025May 21, 2025

• phospholipidosis_project

  Public
  Data analysis and models for predicting phospholipidosis readouts from cell painting

  Jupyter Notebook

  •00 forks•11 star•00 issues•00 pull requests•Updated May 6, 2025May 6, 2025

• SphereDetect

  Public
  Implementation of algorithm to automatically detect spheroid base Z plane in multiwell microscopy.

  Jupyter Notebook

  •

  MIT License

  •11 fork•00 stars•00 issues•00 pull requests•Updated Feb 12, 2025Feb 12, 2025

• lmu-student

  Public
  Deep Learning Notebooks adapted for some of our courses by David Holmberg - including PB_SEQ, ULLA, Ai4DD etc

  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 3, 2025Feb 3, 2025

• ConformalPrediction_Sofia

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Dec 21, 2024Dec 21, 2024