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appredict

Cardiac Action Potential Prediction (ApPredict) under drug-induced block of ion channels. This is a Chaste extension/bolt-on project.

https://github.com/chaste/appredict

Science Score: 44.0%

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  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
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  • ○
    Scientific vocabulary similarity
    Low similarity (10.4%) to scientific vocabulary

Keywords

biophysics cardiac chaste drug-discovery drug-safety electrophysiology ion-channel mathematical-modelling
Last synced: 6 months ago · JSON representation ·

Repository

Cardiac Action Potential Prediction (ApPredict) under drug-induced block of ion channels. This is a Chaste extension/bolt-on project.

Basic Info
Statistics
  • Stars: 7
  • Watchers: 5
  • Forks: 4
  • Open Issues: 3
  • Releases: 6
Topics
biophysics cardiac chaste drug-discovery drug-safety electrophysiology ion-channel mathematical-modelling
Created over 9 years ago · Last pushed 10 months ago
Metadata Files
Readme Citation

README.md

ApPredict - Action Potential Prediction

This project is an extension of Chaste that is intended to be used for simulation of drug action in cardiac electrophysiology models.

Prerequisites

Before using this code you will need to download and install Chaste's dependencies and the Chaste source code itself.

Please see Getting Started for details of how to do this (follow instructions for "Development Code User" to keep up to date with the latest code, or a release version if you want longer-term stability).

Installation

This repo must be cloned into the Chaste source projects folder: sh $ cd <chaste source directory>/projects $ git clone https://github.com/Chaste/ApPredict.git so that all the file paths can be picked up correctly (replacing <chaste source directory> with the place you have put the Chaste source code). Alternatively, you can put a sim link from the above folder to wherever you clone this repo.

This ApPredict project should be used with the current develop branch of Chaste. If instead you want a version that works with a released version of Chaste, then please select the relevant Tag of this github repository.

(In the past we had a git submodule with CellML files from www.github.com/Chaste/CellML, but this is now pulled in by a cmake file download)

Documentation

For further documentation, see https://chaste.github.io/projects/ap-predict/

Owner

  • Name: Chaste - Cancer Heart and Soft Tissue Environment
  • Login: Chaste
  • Kind: organization
  • Email: chaste-users@maillist.ox.ac.uk
  • Location: United Kingdom

C++ library for computational biology and physiology simulations

Citation (CITATION.cff) 

cff-version: 1.2.0
title: ApPredict
message: >-
  ApPredict a free open source program for prediction of
  cardiac action potential changes under drug block of ion
  channels, based on Chaste C++ library. If you use this
  software, please cite it using the preferred citation
  below.
type: software
authors:
  - given-names: Gary
    family-names: Mirams
    email: gary.mirams@nottingham.ac.uk
    affiliation: University of Nottingham
    orcid: 'https://orcid.org/0000-0002-4569-4312'
identifiers:
  - type: doi
    value: 10.5281/zenodo.1138891
    description: Latest version of ApPredict on Zenodo
repository-code: 'https://github.com/Chaste/ApPredict'
url: 'https://chaste.github.io/projects/ap-predict/'
abstract: >-
  ApPredict - a free open source program for prediction of
  action potential changes under drug-block of ion
  channels. 
keywords:
  - hERG
  - safety pharmacology
  - cardiac
  - Torsade
  - Action Potential
license: BSD-3-Clause
commit: '2024.1'
version: '2024.1'
date-released: '2024-02-23'
preferred-citation:
  type: article
  authors:
  - family-names: Williams
    given-names: Geoff
  - family-names: Mirams
    given-names: Gary R
    orcid: 'https://orcid.org/0000-0002-4569-4312'
  journal: "Journal of pharmacological and toxicological methods"
  title: "A web portal for in-silico action potential predictions"
  year: 2015
  volume: 75
  start: 10
  end: 16
  doi: 10.1016/j.vascn.2015.05.002

GitHub Events

Total
  • Watch event: 1
  • Delete event: 1
  • Issue comment event: 5
  • Push event: 9
  • Pull request review event: 2
  • Pull request event: 3
  • Create event: 1
Last Year
  • Watch event: 1
  • Delete event: 1
  • Issue comment event: 5
  • Push event: 9
  • Pull request review event: 2
  • Pull request event: 3
  • Create event: 1

Dependencies

.github/workflows/ubuntu-2004.yml actions
  • actions/cache v3 composite
  • actions/checkout v3 composite
  • voxmedia/github-action-slack-notify-build v1 composite