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@pepkit

Portable Encapsulated Projects

Standardized sample metadata structure for biological research

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  1. peppy peppy Public

    Project metadata manager for biological sample metadata in Python

    Python 41 13

  2. looper looper Public

    Modular job submitter for arbitrary pipelines or commands.

    Python 26 7

  3. geofetch geofetch Public

    Builds a PEP from SRA or GEO accessions

    Python 55 6

  4. pepr pepr Public

    Project metadata manager for PEPs in R

    R 3 1

  5. pepspec pepspec Public

    Documentation for PEP specification and all PEPkit software

    Python 10 4

  6. pephub pephub Public

    A web API and database for biological sample metadata

    TypeScript 22 2

Repositories

Showing 10 of 44 repositories
  • pepembed Public

    Indexer of pephub database

    pepkit/pepembed's past year of commit activity
    Python 1 0 1 0 Updated Oct 5, 2026
  • geopephub Public

    Automatic uploader of GEO metadata to PEPhub.

    pepkit/geopephub's past year of commit activity
    Python 0 BSD-2-Clause 1 0 0 Updated Oct 5, 2026
  • pipestat Public

    Pipeline results reporting package

    pepkit/pipestat's past year of commit activity
    Python 4 BSD-2-Clause 2 10 1 Updated Oct 2, 2026
  • pepspec Public

    Documentation for PEP specification and all PEPkit software

    pepkit/pepspec's past year of commit activity
    Python 10 4 4 0 Updated Oct 2, 2026
  • pephubclient Public

    A tool to provide Python and CLI interface and Python API for PEPhub.

    pepkit/pephubclient's past year of commit activity
    Python 3 BSD-2-Clause 0 10 (2 issues need help) 2 Updated Oct 2, 2026
  • pephub Public

    A web API and database for biological sample metadata

    pepkit/pephub's past year of commit activity
    TypeScript 22 BSD-2-Clause 2 60 (2 issues need help) 1 Updated Oct 2, 2026
  • looper Public

    Modular job submitter for arbitrary pipelines or commands.

    pepkit/looper's past year of commit activity
    Python 26 BSD-2-Clause 7 12 (1 issue needs help) 1 Updated Oct 2, 2026
  • geofetch Public

    Builds a PEP from SRA or GEO accessions

    pepkit/geofetch's past year of commit activity
    Python 55 BSD-2-Clause 6 7 0 Updated Oct 2, 2026
  • eido Public

    Validator for PEP objects

    pepkit/eido's past year of commit activity
    Python 5 BSD-2-Clause 6 5 1 Updated Oct 2, 2026
  • peppy Public

    Project metadata manager for biological sample metadata in Python

    pepkit/peppy's past year of commit activity
    Python 41 BSD-2-Clause 13 33 (1 issue needs help) 1 Updated Oct 1, 2026
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