JOSS Papers: Systems biology

Published Papers

published Published 2 months ago

The Pulmonary Agent-based Infection simulator (PAI): A Multi-Scale Agent-Based Model of Pulmonary Host-Pathogen Interactions

C++ Python

10.21105/joss.10245

published Published 7 months ago

LikelihoodProfiler.jl: Unified profile-likelihood workflows for identifiability and confidence intervals

Julia Jupyter Notebook

10.21105/joss.09501

published Published 10 months ago

ratesb_python: A Python Package for Analyzing Rate Laws in Biological Models

Python

10.21105/joss.07618

published Published 11 months ago

Improving reproducibility of cheminformatics workflows with chembl-downloader

Jupyter Notebook Python

10.21105/joss.08844

published Published over 1 year ago

jax-smfsb: A Python library for stochastic systems biology modelling and inference

Python

10.21105/joss.07491

published Published over 1 year ago

DuneCopasi: A multi-compartment reaction-diffusion simulator for systems biology

C++ GLSL

10.21105/joss.06836

published Published about 2 years ago

scribl: A system for the semantic capture of relationships in biological literature

Python

10.21105/joss.06645

published Published almost 3 years ago

BASICO: A simplified Python interface to COPASI

Python

10.21105/joss.05553

published Published over 3 years ago

Fast and flexible simulation and parameter estimation for synthetic biology using bioscrape

Python Cython Jupyter Notebook

10.21105/joss.05057

published Published over 4 years ago

PyBioPAX: biological pathway exchange in Python

Python

10.21105/joss.04136

Displaying papers 1 - 10 of 16 in total

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