Repositories list

• ARCADE

  Public
  ARCADE: Agent-based model of heterogeneous cell populations in dynamic microenvironments

  Java

  •

  Other

  •55 forks•1212 stars•5151 issues•1313 pull requests•Updated Sep 1, 2026Sep 1, 2026

• spatiotemporal-encoder

  Public
  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 30, 2026Jun 30, 2026

• inverse-design

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 4, 2026Jun 4, 2026

• container-collection

  Public
  Collection of tasks for running containerized models

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •00 forks•33 stars•00 issues•11 pull request•Updated Feb 11, 2026Feb 11, 2026

• arcade-collection

  Public
  Collection of tasks for working with ARCADE

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •11 fork•33 stars•00 issues•00 pull requests•Updated Feb 11, 2026Feb 11, 2026

• emulation

  Public
  published

  published

  Python

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 9, 2025Feb 9, 2025

• emulation_analysis

  Public
  Jupyter Notebook

  •00 forks•11 star•00 issues•00 pull requests•Updated Mar 14, 2024Mar 14, 2024

• arcade_modeling_choices

  Public archive
  Supporting code for doi:10.1371/journal.pcbi.1011917

  HTML

  •00 forks•22 stars•00 issues•00 pull requests•Updated Mar 11, 2024Mar 11, 2024

• parameter-estimation-framework

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 11, 2024Mar 11, 2024

• arcade-xml-generator

  Public
  Python

  •11 fork•00 stars•00 issues•11 pull request•Updated Jan 2, 2024Jan 2, 2024

• CARCADE

  Public
  CAR T-cell ARCADE Biological Modeling Framework

  Java

  •

  GNU General Public License v3.0

  •00 forks•22 stars•00 issues•00 pull requests•Updated Jul 8, 2022Jul 8, 2022

• carcade_mapping_design_space

  Public
  Scripts to automatically analyze and plot CART ABM data

  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 29, 2022Jun 29, 2022

• arcade_emergent_behavior

  Public archive
  Supporting code for doi:10.3389/fbioe.2020.00249

  HTML

  •00 forks•11 star•00 issues•00 pull requests•Updated Jul 19, 2021Jul 19, 2021

• arcade_vascular_dynamics

  Public archive
  Supporting code for doi:10.1016/j.cels.2021.05.007

  HTML

  •00 forks•11 star•00 issues•00 pull requests•Updated Jul 14, 2021Jul 14, 2021

• networkinference

  Public archive
  Network inference performance complexity: a consequence of topological, experimental, and algorithmic determinants

  MATLAB

  •22 forks•00 stars•00 issues•00 pull requests•Updated Jan 11, 2021Jan 11, 2021

• peptidemodel

  Public archive
  Modulating and evaluating receptor promiscuity through directed evolution and modeling

  MATLAB

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 11, 2021Jan 11, 2021

• DUETT

  Public
  Detection of Unknown Events with Tunable Thresholds

  R

  •00 forks•11 star•00 issues•00 pull requests•Updated Jan 17, 2020Jan 17, 2020

• DiffExPy

  Public
  Differential Expression in Python

  00 forks•00 stars•00 issues•00 pull requests•Updated Apr 23, 2019Apr 23, 2019

• SWING

  Public
  Sliding Window Inference for Network Generation

  Python

  •1313 forks•1010 stars•1414 issues•11 pull request•Updated Feb 14, 2018Feb 14, 2018