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@czbiohub-sf

Chan Zuckerberg Biohub San Francisco

CZ Biohub SF logo

The Chan Zuckerberg Biohub San Francisco is a nonprofit research institute focused on understanding the underlying mechanisms of disease and on developing new technologies that will lead to actionable diagnostics and effective therapies. We are a regional research endeavor with international reach, where the San Francisco Bay Area’s leading academic institutions (Stanford University; University of California, Berkeley; and University California, San Francisco) join forces with CZ Biohub’s innovative internal team to catalyze impact, spurring partnerships that benefit people around the world. The tools and technologies we create will always be freely available to scientists everywhere.

Affiliated GitHub organizations

The following GitHub organizations are also part of CZ Biohub San Francisco's GitHub presence:

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We welcome comments, questions, and inquiries. Please use this form to contact us.

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  1. noise2self Public

    A framework for blind denoising with self-supervision.

    Jupyter Notebook 344 76

  2. tabula-muris Public

    Code and annotations for the Tabula Muris single-cell transcriptomic dataset.

    HTML 190 95

  3. xicor Public archive

    xi correlation method adapted for python

    Jupyter Notebook 149 17

  4. tabula-muris-senis Public

    Tabula Muris Senis

    Jupyter Notebook 100 26

  5. tabula-sapiens Public

    Single Cell Transcriptomics of 25 Human Organs to Create a Tabula Sapiens

    Jupyter Notebook 41 9

  6. zebrahub_analysis Public

    Analysis of single-cell single-embryo RNA seq data from the zebrafish developmental atlas Zebrahub.

    Jupyter Notebook 5 1

Repositories

Showing 10 of 109 repositories
  • iohub Public

    Pythonic and parallelizable I/O for N-dimensional imaging data with OME metadata

    Python 34 BSD-3-Clause 8 34 (1 issue needs help) 7 Updated Mar 22, 2025
  • ulc-malaria-scope Public

    Instrument control software for the Remoscope project.

    Python 1 0 1 1 Updated Mar 20, 2025
  • biahub Public

    HUB for Bio Image Analysis

    Python 1 BSD-3-Clause 0 16 9 Updated Mar 19, 2025
  • zebrahub-multiome-analysis Public

    A repository for scripts and notebooks to process and analyze single-cell Multiome datasets from early zebrafish embryos (zebrahub)

    Jupyter Notebook 2 BSD-3-Clause 1 0 0 Updated Mar 17, 2025
  • napari-iohub Public

    OME-Zarr viewer for napari with iohub as the I/O backend

    Python 3 BSD-3-Clause 0 9 2 Updated Mar 17, 2025
  • subcellular-proteomics-curation Public Forked from mffrank/subcellular-proteomics-curation

    Code and documentation for the curation of proteinxlocation datasets

    Python 0 MIT 26 0 1 Updated Mar 12, 2025
  • compmicro-ndutils-env Public

    Shared ndutils environment for maintained by the CompMicro platform

    Dockerfile 0 BSD-3-Clause 0 1 0 Updated Mar 7, 2025
  • reglo-icc-pump-control Public

    Python communication driver for Masterflex Ismatec Reglo ICC programmable peristaltic pumps

    Python 1 BSD-3-Clause 0 0 0 Updated Mar 6, 2025
  • shrimPy Public

    shrimPy: Smart High-throughput Robust Imaging & Measurement in Python

    Python 8 BSD-3-Clause 2 30 2 Updated Mar 6, 2025
  • proteinxlocation Public Forked from chanzuckerberg/cellxgene

    An interactive explorer for single-cell transcriptomics data

    JavaScript 0 MIT 131 0 0 Updated Feb 28, 2025

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