This is a limited proof of concept to search for research data, not a production system.

Search the MIT Libraries

Title: pc4covid19/pc4covid19: pc4covid19 tissue simulator app

Type Software Randy Heiland, Paul Macklin (2020): pc4covid19/pc4covid19: pc4covid19 tissue simulator app. Zenodo. Software. https://zenodo.org/record/3750176

Authors: Randy Heiland (Indiana University) ; Paul Macklin (Macklin cancer simulation lab) ;

Links

Summary

pc4covid19 - COVID19 tissue simulator nanoHUB app

Version: 2.0

Release date: 10 April 2020

Overview

This repository contains code and data for the nanoHUB app https://nanohub.org/tools/pc4covid19. Here, we primarily report on changes to the app's GUI.

It is based on the model at https://github.com/pc4covid19/COVID19. Refer to that repository for a summary of changes to the model.

Caveats and disclaimers:

This model is under active development using rapid prototyping:

It has not been peer reviewed. It is intended to drive basic scientific research and public education at this stage. It cannot be used for public policy decisions. It cannot be used for individual medical decisions.

This model will be continually refined with input from the community, particularly experts in infectious diseases. The validation state will be updated as this progresses.

Release summary: 2.0:

The major change to the GUI in this release is the addition of an 'Animate' tab. This allows animation of cells (not substrates) in the tab and the generation of a .mp4 video that can be downloaded. The animation uses the cells' SVG files.

1.0:

Provides a "standard" PhysiCell-based Jupyter notebook GUI consisting of 5 tabs:

About: a description of the model and the app Config Basics: input parameters common to all models (e.g., domain grid, simulation time, choice/frequency of outputs) Microenvironment: microenvironment parameters that are model-specific User Params: user parameters that are model-specific Out: Plots: output display of cells and substrates

More information

  • DOI: 10.5281/zenodo.3750176

Dates

  • Publication date: 2020
  • Issued: April 13, 2020

Rights

  • info:eu-repo/semantics/openAccess Open Access

Much of the data past this point we don't have good examples of yet. Please share in #rdi slack if you have good examples for anything that appears below. Thanks!

Format

electronic resource

Relateditems

DescriptionItem typeRelationshipUri
IsSupplementTohttps://github.com/pc4covid19/pc4covid19/tree/v2.0
IsVersionOfhttps://doi.org/10.5281/zenodo.3750175
IsPartOfhttps://zenodo.org/communities/covid-19
IsPartOfhttps://zenodo.org/communities/zenodo