Virus QSP Modeling download

Stochastic simulation model of poliovirus Sabin-to-Mahoney genetic state transition (C++ code). Models genotypes, virus populations, and quasispecies cloud. Simulates replication error and copy-choice recombination. Various parameters guiding the model are user-specified. Python code post-processes simulation output to produce report files.

Features

Simulates Picornavirus replication error and copy-choice recombination
Represents genotypes, cell populations, and quasispecies cloud
Allows user control of parameters: MOI, replication error rate, recombination rate, generational growth rate, burst size, number of passages, number of cells, fitness acceleration, Mahoney mutational synergy
Reports population diversity, average fitness, neurovirulence, Mahoney resemblence

Project Activity

See All Activity >

License

GNU General Public License version 3.0 (GPLv3)

Follow Virus QSP Modeling

Virus QSP Modeling Web Site

Other Useful Business Software

MongoDB Atlas runs apps anywhere

Deploy in 115+ regions with the modern database for every enterprise.

MongoDB Atlas gives you the freedom to build and run modern applications anywhere—across AWS, Azure, and Google Cloud. With global availability in over 115 regions, Atlas lets you deploy close to your users, meet compliance needs, and scale with confidence across any geography.

Start Free

Rate This Project

User Reviews

Be the first to post a review of Virus QSP Modeling!

Additional Project Details

Intended Audience

Advanced End Users, Developers, Education, Science/Research

Programming Language

C++, Python

Related Categories

Python Bio-Informatics Software, C++ Bio-Informatics Software

Registered

2016-02-19

Similar Business Software

Alchemite

Alchemite provides AI-augmented physical modeling and solutions that help organizations extract actionable insights from experimental and simulation data by combining machine learning with physics-informed models to improve prediction accuracy, reduce experimental costs, and optimize product and...

See Software
OmicsBox

OmicsBox is a leading bioinformatics solution that offers end-to-end data analysis of genomes, transcriptomes, metagenomes, and genetic variation studies. The application is used by top private and public research institutions worldwide and allows researchers to easily process large and complex...

See Software
SnapGene

Accurately design and simulate cloning procedures. Test complicated projects, catch errors before they happen, and obtain the right constructs the first time. Cloning is easier when you can see what you are doing. The intuitive interface offers you unparalleled visibility into your work,...

See Software
Edison Analysis

Edison Analysis is a next-generation scientific data-analysis agent built by Edison Scientific. It is the analytical engine underpinning their AI Scientist platform, Kosmos, and it’s available both on Edison’s platform and via API. Edison Analysis performs complex scientific data analysis by...

See Software
OmnibusX

In the world of biological data science, navigating vast and complex datasets can be a daunting task. Our software toolkit is designed to empower you by accelerating analysis, promoting accessibility, and providing comprehensive visualization tools to help you make sense of these intricate...

See Software
MEGA

MEGA (Molecular Evolutionary Genetics Analysis) is a powerful and user-friendly software suite designed for analyzing DNA and protein sequence data from species and populations. It facilitates both automatic and manual sequence alignment, phylogenetic tree inference, and evolutionary hypothesis...

See Software