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@Fred-Hutch-Innovation-Lab

Fred Hutch Innovation Lab

Fred Hutch Innovation Lab

Computational resources, documentation, and analyses for the Fred Hutch Innovation Lab (FHIL). Get started with the knowledgebase for FHIL standard operating procedures. Look at the loose collection of computational workflows to borrow code for your project. Use the standard project template to start a new analysis in a consistent structure.

Use topics to label and sort repos:

  • resources for code etc. developed for re-use (generally public)
  • project-analysis for project-specific analyses (generally private)
    • publication for repos tied to a publication (must be public)
  • old-projects for repos prior to the cleanup effort that I'm hesitant to delete but are probably not needed (private/archived)

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  1. FHIL-data-science-knowledgebase FHIL-data-science-knowledgebase Public

    Standard operating procedures for the Fred Hutch Innovation Lab

    Ruby 1

  2. analysis_project_template analysis_project_template Public template

    template repository for all data analysis

    Shell

  3. general_workflows general_workflows Public

    invocations, scripts, functions, etc that don't fit their own repo yet

    Jupyter Notebook

  4. rstudio-server-launcher rstudio-server-launcher Public

    Quick launch containerized rstudio server hosted on HPC

    Shell

  5. jupyter-lab-launcher jupyter-lab-launcher Public

    Quick launch containerized jupyter lab hosted on HPC

    Shell

  6. FHIL_python_utils FHIL_python_utils Public

    Utility functions for spatial RNA analysis, built in python for compatibility with Anndata, Scanpy, Squidpy, etc.

    Python

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