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    101 repositories

    • ai-powered-coding

      Public
      Workshop materials for “AI-Powered Vibe Coding” (CCB, HMS): slides, setup guides, live demo, and hands-on R/Python exercises.
      R
      •1•2•0•0•Updated Apr 16, 2026Apr 16, 2026

    • cadence

      Public
      A project for creating meeting schedules.
      Jupyter Notebook
      •
      Creative Commons Attribution 4.0 International
      •0•0•0•0•Updated Apr 10, 2026Apr 10, 2026

    • MouseAgingData

      Public
      Mouse aging multi-omics project with Rubin Lab
      R
      •1•1•1•0•Updated Apr 7, 2026Apr 7, 2026

    • ProteinGymR

      Public
      Programmatic access to ProteinGym datasets in R/Bioconductor
      R
      •1•0•2•0•Updated Apr 7, 2026Apr 7, 2026

    • scConform

      Public
      Uncertainty quantification for cell type annotation using conformal inference
      u24ca289073
      u24ca289073
      R
      •0•6•2•0•Updated Mar 31, 2026Mar 31, 2026

    • AISC-610

      Public
      Supplementary notes for AISC 610: Computationally-Enabled Medicine at Harvard Medical School.
      R
      •0•0•0•0•Updated Mar 25, 2026Mar 25, 2026

    • LLMTools-HMS

      Public
      A repository for getting started with LLM resources at Harvard Medical School
      Jupyter Notebook
      •
      Creative Commons Attribution 4.0 International
      •0•2•0•0•Updated Mar 13, 2026Mar 13, 2026

    • perio-bugs

      Public
      Database of published microbial signatures of differential abundance in periodontal health and disease (Feres lab, HSDM)
      R
      •0•0•0•0•Updated Mar 13, 2026Mar 13, 2026

    • spatial-workshop-python

      Public
      Repository for spatial omics workshop in Python with the scverse ecosystem.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•8•0•0•Updated Mar 10, 2026Mar 10, 2026

    • computervision

      Public
      The CCB Computer Vision Repository
      machine-learningcomputer-visiondeep-learning
      machine-learningcomputer-visiondeep-learningneural-networks
      Jupyter Notebook
      •
      Creative Commons Attribution 4.0 International
      •0•1•0•0•Updated Mar 6, 2026Mar 6, 2026

    • meded_pingpong

      Public
      A software platform carefully designed for AI-driven learning.
      Python
      •
      MIT License
      •2•0•0•0•Updated Feb 24, 2026Feb 24, 2026

    • scDiagnosticsManuscript

      Public
      Reproducible analyses for scDiagnostics manuscript
      R
      •
      MIT License
      •1•0•0•0•Updated Feb 2, 2026Feb 2, 2026

    • BioPlex

      Public
      R-side access to protein-protein interaction data from Gygi and Harper labs
      R
      •2•8•4•0•Updated Jan 28, 2026Jan 28, 2026

    • git_backed_test

      Public
      0•0•0•0•Updated Jan 28, 2026Jan 28, 2026

    • scDiagnostics

      Public
      Diagnostic functions to assess the quality of cell type annotations in single-cell RNA sequencing data
      R
      •2•13•7•0•Updated Jan 25, 2026Jan 25, 2026

    • ProteinGymPy

      Public
      Programmatic access to ProteinGym datasets in Python
      Python
      •
      Creative Commons Attribution 4.0 International
      •1•0•6•2•Updated Dec 9, 2025Dec 9, 2025

    • immunology-bootcamp-2023

      Public
      Materials for Systems Immunology R Bootcamp Fall 2023
      HTML
      •
      Other
      •1•0•0•0•Updated Nov 12, 2025Nov 12, 2025

    • BioPlexPy

      Public
      Python-side access to PPI data from Gygi lab
      Jupyter Notebook
      •
      MIT License
      •1•4•3•0•Updated Nov 5, 2025Nov 5, 2025

    • ISL_ch5_resampling_python_lab

      Public
      Lab portion of the ISL ch5 with configuration for codespaces
      Jupyter Notebook
      •0•0•1•0•Updated Oct 21, 2025Oct 21, 2025

    • AlphaMissenseR

      Public
      Accessing AlphaMissense Data Resources in R
      R
      •3•0•2•0•Updated Oct 12, 2025Oct 12, 2025

    • missing_data

      Public
      Missing data workshop
      R
      •0•0•0•0•Updated Sep 24, 2025Sep 24, 2025

    • BioPlex_abundance_Shiny

      Public
      Shiny App for protein and PTM abundance analysis
      R
      •1•0•0•0•Updated Sep 17, 2025Sep 17, 2025

    • MerfishData

      Public
      Collection of public MERFISH datasets
      R
      •2•1•2•0•Updated Jul 13, 2025Jul 13, 2025

    • HarvardInovalonUserGuide

      Public
      User guide for Harvard's Inovalon resources.
      R
      •
      MIT License
      •2•6•0•0•Updated Jul 11, 2025Jul 11, 2025

    • scDiagnosticsApp

      Public
      Shiny app for scDiagnostics
      R
      •0•0•0•0•Updated Jul 1, 2025Jul 1, 2025

    • ccbfold

      Public
      AlphaFold3 workshop
      Python
      •
      Other
      •0•2•0•0•Updated May 22, 2025May 22, 2025

    • af3_workshop_exercise_05_visualizing_interpreting

      Public
      jupyterlite version of exercise 5 of the AlphaFold3 workshop
      Jupyter Notebook
      •0•0•2•0•Updated May 12, 2025May 12, 2025

    • visualization_demo

      Public
      demo from ccbfold exercise 05 that is hosted in browser
      Jupyter Notebook
      •0•0•0•0•Updated May 9, 2025May 9, 2025

    • AutomaticSpeechRecognition

      Public
      Examples to help you get up and running with locally-hosted ASR models.
      Python
      •
      MIT License
      •0•0•0•0•Updated Mar 20, 2025Mar 20, 2025

    • af3

      Public
      Biowulf alphhafold3 wrapper
      Python
      •
      Other
      •1•0•0•0•Updated Mar 11, 2025Mar 11, 2025
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