These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
5. SimService: a lightweight library for building simulation services in Python. Sego TJ Bioinformatics; 2024 Jan; 40(1):. PubMed ID: 38237907 [TBL] [Abstract][Full Text] [Related]
6. libRoadRunner: a high performance SBML simulation and analysis library. Somogyi ET; Bouteiller JM; Glazier JA; König M; Medley JK; Swat MH; Sauro HM Bioinformatics; 2015 Oct; 31(20):3315-21. PubMed ID: 26085503 [TBL] [Abstract][Full Text] [Related]
7. Integration of the Rosetta suite with the python software stack via reproducible packaging and core programming interfaces for distributed simulation. Ford AS; Weitzner BD; Bahl CD Protein Sci; 2020 Jan; 29(1):43-51. PubMed ID: 31495995 [TBL] [Abstract][Full Text] [Related]
9. The CoLoMoTo Interactive Notebook: Accessible and Reproducible Computational Analyses for Qualitative Biological Networks. Naldi A; Hernandez C; Levy N; Stoll G; Monteiro PT; Chaouiya C; Helikar T; Zinovyev A; Calzone L; Cohen-Boulakia S; Thieffry D; Paulevé L Front Physiol; 2018; 9():680. PubMed ID: 29971009 [TBL] [Abstract][Full Text] [Related]
10. Leaf-GP: an open and automated software application for measuring growth phenotypes for arabidopsis and wheat. Zhou J; Applegate C; Alonso AD; Reynolds D; Orford S; Mackiewicz M; Griffiths S; Penfield S; Pullen N Plant Methods; 2017; 13():117. PubMed ID: 29299051 [TBL] [Abstract][Full Text] [Related]
14. Artistoo, a library to build, share, and explore simulations of cells and tissues in the web browser. Wortel IM; Textor J Elife; 2021 Apr; 10():. PubMed ID: 33835022 [TBL] [Abstract][Full Text] [Related]
15. ipyrad: Interactive assembly and analysis of RADseq datasets. Eaton DAR; Overcast I Bioinformatics; 2020 Apr; 36(8):2592-2594. PubMed ID: 31904816 [TBL] [Abstract][Full Text] [Related]
16. PhysiCell: An open source physics-based cell simulator for 3-D multicellular systems. Ghaffarizadeh A; Heiland R; Friedman SH; Mumenthaler SM; Macklin P PLoS Comput Biol; 2018 Feb; 14(2):e1005991. PubMed ID: 29474446 [TBL] [Abstract][Full Text] [Related]
17. BlenderPhotonics: an integrated open-source software environment for three-dimensional meshing and photon simulations in complex tissues. Zhang Y; Fang Q J Biomed Opt; 2022 Apr; 27(8):. PubMed ID: 35429155 [TBL] [Abstract][Full Text] [Related]
18. libRoadRunner 2.0: a high performance SBML simulation and analysis library. Welsh C; Xu J; Smith L; König M; Choi K; Sauro HM Bioinformatics; 2023 Jan; 39(1):. PubMed ID: 36478036 [TBL] [Abstract][Full Text] [Related]
19. STSE: Spatio-Temporal Simulation Environment Dedicated to Biology. Stoma S; Fröhlich M; Gerber S; Klipp E BMC Bioinformatics; 2011 Apr; 12():126. PubMed ID: 21527030 [TBL] [Abstract][Full Text] [Related]
20. Pycellerator: an arrow-based reaction-like modelling language for biological simulations. Shapiro BE; Mjolsness E Bioinformatics; 2016 Feb; 32(4):629-31. PubMed ID: 26504142 [TBL] [Abstract][Full Text] [Related] [Next] [New Search]