Repositories list

• miniwdl

  Public
  Workflow Description Language developer tools & local runner

  wdlworkflow-description-language

  Python

  •

  MIT License

  •58•188•133•14•Updated Jul 13, 2025Jul 13, 2025

• cz-benchmarks

  Public
  cz-benchmarks is a package for standardized evaluation and comparison of machine learning models for biological applications.

  Python

  •

  Other

  •3•16•32•17•Updated Jul 12, 2025Jul 12, 2025

• aws-oidc

  Public
  AWS OIDC Federation

  Go

  •

  MIT License

  •5•17•0•2•Updated Jul 12, 2025Jul 12, 2025

• cellxgene

  Public
  An interactive explorer for single-cell transcriptomics data

  datavizscrna-seqtranscriptomics+ 2visualizationscientific

  JavaScript

  •

  MIT License

  •137•696•131•0•Updated Jul 12, 2025Jul 12, 2025

• delta-share

  Public
  Go

  •

  MIT License

  •0•0•0•11•Updated Jul 11, 2025Jul 11, 2025

• single-cell-data-portal

  Public
  The data portal supporting the submission, exploration, and management of projects and datasets to cellxgene.

  TypeScript

  •

  MIT License

  •15•76•254•16•Updated Jul 11, 2025Jul 11, 2025

• single-cell-curation

  Public
  Code and documentation for the curation of cellxgene datasets

  Python

  •

  MIT License

  •28•47•31•1•Updated Jul 11, 2025Jul 11, 2025

• edu-design-system

  Public
  Design system for Education Projects

  reactdesign-systemstyle-dictionary

  TypeScript

  •

  MIT License

  •4•31•1•0•Updated Jul 11, 2025Jul 11, 2025

• argus-artifacts

  Public
  MIT License

  •0•1•0•1•Updated Jul 11, 2025Jul 11, 2025

• homebrew-tap

  Public
  Ruby

  •2•3•2•0•Updated Jul 11, 2025Jul 11, 2025

• blessclient

  Public
  Go client to negotiate SSH certificates

  czisshcertificate+ 3rsyncscpssh-agent

  Go

  •

  MIT License

  •17•65•8•2•Updated Jul 11, 2025Jul 11, 2025

• octopi

  Public
  Search for Protein 3D Coordinates in CryoET Tomograms

  machine-learningdeep-learningbayesian-optimization+ 33d-segmentationcryo-et3d-unet

  Jupyter Notebook

  •

  Other

  •1•4•0•3•Updated Jul 11, 2025Jul 11, 2025

• cryoet-data-portal-backend

  Public
  CryoET Data Portal API server & ingestion scripts

  Python

  •

  MIT License

  •5•4•7•22•Updated Jul 11, 2025Jul 11, 2025

• saber

  Public
  Segment Organelles from Electron Microscopy Datasets with Segment-Anything 2

  computer-visiondeep-learningsegmentation

  Jupyter Notebook

  •

  MIT License

  •0•3•0•1•Updated Jul 10, 2025Jul 10, 2025

• cryoet-data-portal

  Public
  CryoET Data Portal

  TypeScript

  •

  MIT License

  •13•24•276•15•Updated Jul 10, 2025Jul 10, 2025

• single-cell-explorer

  Public
  Hosted version of cellxgene

  TypeScript

  •

  MIT License

  •4•16•61•1•Updated Jul 10, 2025Jul 10, 2025

• argo-helm-charts

  Public
  Smarty

  •0•0•0•2•Updated Jul 10, 2025Jul 10, 2025

• camelot

  Public
  Go

  •

  MIT License

  •0•1•0•0•Updated Jul 10, 2025Jul 10, 2025

• cellxgene-census

  Public
  CZ CELLxGENE Discover Census

  Jupyter Notebook

  •

  MIT License

  •27•105•99•17•Updated Jul 9, 2025Jul 9, 2025

• czid-web

  Public
  Infectious Disease Sequencing Platform

  scienceresearchbiology+ 12sequencingcomputational-biologynext-generation-sequencingbioinformatics-pipelineglobal-healthvirologyinfectious-diseases+ 5

  TypeScript

  •

  MIT License

  •26•86•0•5•Updated Jul 7, 2025Jul 7, 2025

• fogg

  Public
  Manage Infrastructure as Code with less pain.

  terraforminfrastructure-as-codeinfrastructure

  Go

  •

  MIT License

  •19•300•38•2•Updated Jul 7, 2025Jul 7, 2025

• happy

  Public
  Happy Path Deployment Tool

  kubernetesinfrastructureterraform

  Go

  •

  MIT License

  •3•18•13•13•Updated Jul 7, 2025Jul 7, 2025

• cellxgene-ontology-guide

  Public
  Notebook guide: https://github.com/chanzuckerberg/cellxgene-ontology-guide/blob/main/api/python/notebooks/Python%20API.ipynb

  Python

  •

  MIT License

  •1•7•10•5•Updated Jul 7, 2025Jul 7, 2025

• cryoet-data-portal-neuroglancer

  Public
  CryoET Data Portal Neuroglancer configuration helper

  Python

  •

  MIT License

  •2•1•1•3•Updated Jul 3, 2025Jul 3, 2025

• platformics

  Public
  Codegen Python GraphQL Entity Framework

  Python

  •

  MIT License

  •0•6•14•5•Updated Jul 2, 2025Jul 2, 2025

• delta-share-artifacts

  Public
  MIT License

  •0•0•0•0•Updated Jul 2, 2025Jul 2, 2025

• czid-graphql-federation-server

  Public
  GraphQL Mesh server for CZ ID

  TypeScript

  •

  MIT License

  •2•0•0•3•Updated Jul 2, 2025Jul 2, 2025

• cztack

  Public
  The CZI infrastructure stack.

  HCL

  •

  MIT License

  •24•67•3•4•Updated Jun 30, 2025Jun 30, 2025

• data-guidance

  Public
  Data standards and policies

  MIT License

  •0•0•3•1•Updated Jun 27, 2025Jun 27, 2025

• copick-server

  Public
  Python

  •2•0•0•3•Updated Jun 27, 2025Jun 27, 2025