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@cellannotation Cell Annotation Platform

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    15 repositories

    • cap-data-schema

      Public
      Data schema of the AnnData (*.h5ad) file for ingestion to the Cell-Annotation-Platform (CAP)
      MIT License
      •0•1•0•0•Updated Apr 13, 2026Apr 13, 2026

    • cap-python-client

      Public
      Python client for CAP GraphQL API
      Python
      •
      MIT License
      •0•1•2•0•Updated Apr 2, 2026Apr 2, 2026

    • cap-validator

      Public
      Python tool for validating H5AD AnnData files before uploading to the Cell Annotation Platform.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•0•0•Updated Mar 4, 2026Mar 4, 2026

    • cap-pipeline-config

      Public
      Building ontology pipeline configurations for the Cell Annotation Platform
      Python
      •0•3•0•0•Updated Mar 3, 2026Mar 3, 2026

    • cap_ontology

      Public
      An ODK based repo that allows us to finely tailor content for loading into the KB and also to manage content generated for CAP
      Makefile
      •1•2•0•0•Updated Mar 3, 2026Mar 3, 2026

    • pairOT

      Public
      Python package to align cell annotations between single-cell RNA-seq datasets
      scrna-seqoptimal-transportsingle-cell-rna-seq
      scrna-seqoptimal-transportsingle-cell-rna-seqcell-annotation-alignment
      Python
      •
      MIT License
      •0•2•0•0•Updated Feb 27, 2026Feb 27, 2026

    • cap-anndata

      Public
      Partial I/O functionality for AnnData (.h5ad) Files
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•7•4•0•Updated Feb 2, 2026Feb 2, 2026

    • cap-gene-filtering

      Public
      Genes which are often over-expressed but biologically non-informative, filtered out on CAP by default
      Jupyter Notebook
      •0•1•0•0•Updated Nov 17, 2025Nov 17, 2025

    • cas-tools

      Public
      Cell Annotation Schema Tools
      Jupyter Notebook
      •0•1•12•0•Updated Nov 5, 2025Nov 5, 2025

    • capseuratconverter

      Public
      The dedicated repo for h5ad to Seurat-rds files convertion
      R
      •1•5•1•0•Updated Sep 23, 2025Sep 23, 2025

    • cap-naive-bayes

      Public
      An implementation of a Naive Bayes classifier for multinomial models that supports prediction with missing features.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Aug 15, 2025Aug 15, 2025

    • cell-annotation-schema

      Public
      General, open-standard schema for cell annotations
      Python
      •2•16•20•3•Updated Jun 16, 2025Jun 16, 2025

    • cap_organ_slim

      Public
      Makefile
      •0•1•0•0•Updated Nov 28, 2024Nov 28, 2024

    • CAS-LinkML

      Public
      0•1•4•0•Updated May 7, 2024May 7, 2024

    • cap-pipeline-dumps

      Public
      Python
      •0•1•0•0•Updated Jan 8, 2024Jan 8, 2024
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