Repositories list

• BowTieBuilder-Algorithm

  Public
  This repository contains an implementation of the BowTieBuilder Algorithm.

  Jupyter Notebook

  •2•0•0•0•Updated Feb 6, 2025Feb 6, 2025

• grphin

  Public
  Python

  •1•0•0•0•Updated Feb 3, 2025Feb 3, 2025

• spras-benchmarking

  Public
  Benchmarking datasets for the SPRAS project

  Jupyter Notebook

  •

  MIT License

  •5•0•0•4•Updated Feb 1, 2025Feb 1, 2025

• spras

  Public
  Signaling Pathway Reconstruction Analysis Streamliner (SPRAS)

  snakemakenetworkomics+ 1workkflow

  Python

  •

  MIT License

  •20•13•86•13•Updated Jan 31, 2025Jan 31, 2025

• protein-weaver

  Public
  A web interface for ontology-based protein network visualization.

  neo4jgene-ontologyweb-tool+ 3cytoscapejsprotein-protein-interactionnetwork-biology

  JavaScript

  •

  GNU General Public License v3.0

  •5•2•26•8•Updated Dec 23, 2024Dec 23, 2024

• protein-function-prediction

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

  gene-ontologyprotein-protein-interaction

  Python

  •0•1•2•0•Updated Oct 9, 2024Oct 9, 2024

• ResponseNet

  Public
  Implementation of the ResponseNet algorithm

  Python

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Aug 26, 2024Aug 26, 2024

• github-tutorial

  Public
  0•0•0•0•Updated Jun 6, 2024Jun 6, 2024

• growing-dags

  Public
  Python

  •0•0•0•0•Updated Sep 11, 2023Sep 11, 2023

• nmii-contractility-regulators

  Public
  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Sep 5, 2023Sep 5, 2023

• random-walk-with-restart

  Public
  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Aug 17, 2023Aug 17, 2023

• graphlet-clustering

  Public
  Jupyter Notebook

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Aug 6, 2023Aug 6, 2023

• TieDIE

  Public
  Tied Diffusion for Subnetwork Discovery (TieDIE)

  Python

  •

  Other

  •22•0•0•0•Updated Jun 21, 2023Jun 21, 2023

• Graphery

  Public
  A graph tutorial website

  websitedjangovue+ 2graph-algorithmscomputational-biology

  Python

  •

  MIT License

  •3•10•34•21•Updated Mar 5, 2023Mar 5, 2023

• pathway-reconciliation

  Public
  Python

  •

  GNU General Public License v3.0

  •0•2•0•0•Updated Oct 6, 2022Oct 6, 2022

• GrapheryV2-Vue

  Public
  The frontend of Graphery, a graph algorithm tutorial & visualization website

  TypeScript

  •0•0•0•0•Updated Aug 2, 2022Aug 2, 2022

• GrapheryV2-Django

  Public
  The backend of Graphery, a graph algorithm tutorial & visualization website

  Python

  •0•0•0•0•Updated Jul 31, 2022Jul 31, 2022

• GrapheryExecutor

  Public
  Graphery Executor

  Python

  •

  MIT License

  •0•0•0•0•Updated Jul 31, 2022Jul 31, 2022

• GrapheryRFCs

  Public
  MIT License

  •0•0•0•0•Updated Jul 28, 2022Jul 28, 2022

• networkx

  Public
  Graphery networkx Wrapper

  Python

  •

  Other

  •3.3k•0•0•0•Updated Jun 22, 2022Jun 22, 2022

• BIO331-F20

  Public
  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Aug 25, 2021Aug 25, 2021

• BIO331-Datasets

  Public
  Bio331 Fall 2020 -- Datasets

  GNU General Public License v3.0

  •0•1•0•0•Updated Aug 25, 2021Aug 25, 2021

• pathway-parsers

  Public
  Signaling pathway database parsers

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Jul 20, 2021Jul 20, 2021

• BIO331-F20-Lab6.2-community-detection

  Public archive
  Bio331 -- Fall 2020 -- Lab 6 Part 2

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Oct 13, 2020Oct 13, 2020

• BIO331-F20-Lab6.1-GitHub

  Public archive
  Bio331 -- Fall 2020-- Lab 6 Part 1

  GNU General Public License v3.0

  •0•0•0•0•Updated Oct 13, 2020Oct 13, 2020

• BIO331-F20-M3-betweenness-centralities

  Public archive
  Bio331 Fall 2020 -- Module 3

  Python

  •

  GNU General Public License v3.0

  •0•0•0•2•Updated Oct 7, 2020Oct 7, 2020

• BIO331-F20-Lab5-random-walk-sim

  Public archive
  Bio331 Fall 2020 -- Lab 5

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Oct 5, 2020Oct 5, 2020

• BIO331-F20-Lab4-steiner-tree-approx

  Public archive
  Biol330 Fall 2020 -- Lab 4

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Sep 29, 2020Sep 29, 2020

• BIO331-F20-M2-interactome-properties

  Public archive
  Bio331 Fall 2020 -- Module 2

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Sep 23, 2020Sep 23, 2020

• BIO331-F20-Lab3-shortest-paths

  Public archive
  Bio331 Fall 2020 -- Module 2 -- Lab 3

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Sep 15, 2020Sep 15, 2020