Repositories list

• ccf-validation-tools

  Public
  HRA ASCT+B Validation Reports

  human-reference-atlas

  Python

  •

  Apache License 2.0

  •1•6•4•3•Updated Dec 4, 2024Dec 4, 2024

• py-hubmapbags

  Public
  Python package used to build the submission for the CFDE Search Portal

  data-wrangling

  Jupyter Notebook

  •2•1•20•2•Updated Dec 4, 2024Dec 4, 2024

• dataset-metadata-spreadsheet

  Public
  MIT License

  •0•1•1•0•Updated Dec 4, 2024Dec 4, 2024

• hra-ui

  Public
  HRA UIs Monorepo (includes HRA Portal, EUI, RUI, ASCT+B Reporter, and more)

  human-reference-atlas

  TypeScript

  •

  MIT License

  •2•4•107•3•Updated Dec 3, 2024Dec 3, 2024

• portal-visualization

  Public
  Given HuBMAP Dataset JSON, creates a Vitessce configuration

  visualizationgehlenborglabhidivelab

  Python

  •

  MIT License

  •1•1•11•5•Updated Dec 3, 2024Dec 3, 2024

• search-api

  Public
  HuBMAP search service and associated pieces to create an index

  Python

  •

  MIT License

  •2•2•44•2•Updated Dec 3, 2024Dec 3, 2024

• entity-api

  Public
  A set of web service calls to return information about HuBMAP entities

  Python

  •

  MIT License

  •1•3•58•2•Updated Dec 3, 2024Dec 3, 2024

• user_workspaces_server

  Public
  Python

  •

  MIT License

  •1•0•6•1•Updated Dec 3, 2024Dec 3, 2024

• ingest-api

  Public
  Python

  •

  MIT License

  •0•0•19•1•Updated Dec 3, 2024Dec 3, 2024

• user-templates-api

  Public
  Python

  •

  MIT License

  •3•0•2•3•Updated Dec 3, 2024Dec 3, 2024

• documentation

  Public
  General Documentation For HuBMAP

  JavaScript

  •1•0•3•0•Updated Dec 3, 2024Dec 3, 2024

• portal-ui

  Public
  HuBMAP Data Portal front end

  user-interfacegehlenborglabhubmap+ 1hidivelab

  TypeScript

  •

  MIT License

  •2•12•200•28•Updated Dec 3, 2024Dec 3, 2024

• hra-kg

  Public
  HRA-KG: Human Reference Atlas Knowledge Graph

  human-reference-atlas

  Mermaid

  •

  MIT License

  •1•3•3•1•Updated Dec 3, 2024Dec 3, 2024

• hra-registrations

  Public
  Manually curated HRA Dataset Graphs

  human-reference-atlas

  HTML

  •

  MIT License

  •0•1•14•0•Updated Dec 3, 2024Dec 3, 2024

• ingest-pipeline

  Public
  Data ingest pipeline(s) for QA/metadata etl/post-processing

  Python

  •

  MIT License

  •5•4•79•19•Updated Dec 3, 2024Dec 3, 2024

• kaggle-2-segmentation

  Public
  Python

  •

  MIT License

  •0•0•1•0•Updated Dec 3, 2024Dec 3, 2024

• data-products-ui

  Public
  JavaScript

  •0•0•7•0•Updated Dec 3, 2024Dec 3, 2024

• codex-pipeline

  Public
  CODEX data processing code

  Python

  •

  GNU General Public License v3.0

  •4•11•8•2•Updated Dec 3, 2024Dec 3, 2024

• hra-hubmap-kpmp-integration

  Public
  [WIP] repo for exploring HRA HuBMAP + KPMP Integration

  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Dec 2, 2024Dec 2, 2024

• sprm

  Public
  Python

  •

  GNU General Public License v3.0

  •0•4•9•1•Updated Dec 2, 2024Dec 2, 2024

• rna-data-products

  Public
  Python

  •

  GNU General Public License v3.0

  •0•0•3•0•Updated Dec 2, 2024Dec 2, 2024

• ccf-grlc

  Public
  ccf-grlc: Useful SPARQL queries for HRA work + API via grlc.io

  human-reference-atlas

  JavaScript

  •

  MIT License

  •1•1•1•0•Updated Dec 2, 2024Dec 2, 2024

• py-hubmap-dbgap

  Public
  Python package that creates a dbGaP submission from HuBMAP datasets

  dbgap

  Jupyter Notebook

  •1•1•7•1•Updated Nov 27, 2024Nov 27, 2024

• ingest-validation-tests

  Public
  Python

  •0•0•4•2•Updated Nov 27, 2024Nov 27, 2024

• multiome-data-products

  Public
  Python

  •0•0•0•0•Updated Nov 25, 2024Nov 25, 2024

• member-ui

  Public
  Forms and service for HuBMAP user registration and profile edit

  HTML

  •

  MIT License

  •0•0•9•1•Updated Nov 25, 2024Nov 25, 2024

• hra-do-processor

  Public
  hra-do-processor: HRA Digital Objects Processor

  human-reference-atlas

  JavaScript

  •

  MIT License

  •0•2•4•0•Updated Nov 23, 2024Nov 23, 2024

• xenium-pipeline

  Public
  Common Workflow Language

  •0•0•0•0•Updated Nov 22, 2024Nov 22, 2024

• pas-ftu-segmentation-pipeline

  Public
  Python

  •

  MIT License

  •0•0•3•0•Updated Nov 21, 2024Nov 21, 2024

• soft-assay-rules

  Public
  Rules for "soft" assay classification, and tools to generate and test them.

  Python

  •

  MIT License

  •0•0•0•2•Updated Nov 21, 2024Nov 21, 2024