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@Reed-CompBio

Reed College Computational Biology

computational biology courses and projects at Reed College

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  1. Graphery Graphery Public

    A graph tutorial website

    Python 13 3

  2. spras spras Public

    Signaling Pathway Reconstruction Analysis Streamliner (SPRAS)

    Python 21 29

  3. pathway-reconciliation pathway-reconciliation Public

    Python 4

  4. growing-dags growing-dags Public

    Python 1

  5. protein-weaver protein-weaver Public

    A web interface for ontology-based protein network visualization.

    JavaScript 2 5

Repositories

Showing 10 of 38 repositories
  • spras Public

    Signaling Pathway Reconstruction Analysis Streamliner (SPRAS)

    Reed-CompBio/spras's past year of commit activity
    Python 21 MIT 29 147 47 Updated Sep 25, 2026
  • spras-benchmarking Public

    Benchmarking datasets and analysis using SPRAS

    Reed-CompBio/spras-benchmarking's past year of commit activity
    2 MIT 13 21 11 Updated Sep 22, 2026
  • BowTieBuilder-Algorithm Public

    This repository contains an implementation of the BowTieBuilder Algorithm.

    Reed-CompBio/BowTieBuilder-Algorithm's past year of commit activity
    Jupyter Notebook 1 MIT 2 0 0 Updated Jul 21, 2025
  • rwr Public

    Random Walk w/ Restart (RWR) and variations for SPRAS.

    Reed-CompBio/rwr's past year of commit activity
    Python 0 MIT 0 1 0 Updated Jul 20, 2025
  • protein-function-prediction Public

    A tool to predict protein functions (Gene Ontology) via protein-protein and ontology networks

    Reed-CompBio/protein-function-prediction's past year of commit activity
    Python 1 0 2 0 Updated Jul 15, 2025
  • grphin Public
    Reed-CompBio/grphin's past year of commit activity
    HTML 3 MIT 2 2 1 Updated Jul 15, 2025
  • protein-weaver Public

    A web interface for ontology-based protein network visualization.

    Reed-CompBio/protein-weaver's past year of commit activity
    JavaScript 2 GPL-3.0 5 27 10 Updated Jul 15, 2025
  • growing-dags-rs Public

    A Growing DAGs reimplementation.

    Reed-CompBio/growing-dags-rs's past year of commit activity
    Rust 0 0 0 0 Updated Jul 7, 2025
  • all-pairs-shortest-paths Public

    APSP pathway reconstruction algorithm python implementation

    Reed-CompBio/all-pairs-shortest-paths's past year of commit activity
    Python 0 MIT 0 0 0 Updated Jun 23, 2025
  • sp-orientation Public

    Shortest Paths-based Orientation PRA reimplementation

    Reed-CompBio/sp-orientation's past year of commit activity
    Python 0 0 0 0 Updated Jun 16, 2025
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