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.
4. BioRuby: bioinformatics software for the Ruby programming language. Goto N; Prins P; Nakao M; Bonnal R; Aerts J; Katayama T Bioinformatics; 2010 Oct; 26(20):2617-9. PubMed ID: 20739307 [TBL] [Abstract][Full Text] [Related]
5. 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]
6. Simulated single molecule microscopy with SMeagol. Lindén M; Ćurić V; Boucharin A; Fange D; Elf J Bioinformatics; 2016 Aug; 32(15):2394-5. PubMed ID: 27153711 [TBL] [Abstract][Full Text] [Related]
7. The Infobiotics Workbench: an integrated in silico modelling platform for Systems and Synthetic Biology. Blakes J; Twycross J; Romero-Campero FJ; Krasnogor N Bioinformatics; 2011 Dec; 27(23):3323-4. PubMed ID: 21994219 [TBL] [Abstract][Full Text] [Related]
8. MpTheory Java library: a multi-platform Java library for systems biology based on the Metabolic P theory. Marchetti L; Manca V Bioinformatics; 2015 Apr; 31(8):1328-30. PubMed ID: 25504849 [TBL] [Abstract][Full Text] [Related]
9. SimMLST: simulation of multi-locus sequence typing data under a neutral model. Didelot X; Lawson D; Falush D Bioinformatics; 2009 Jun; 25(11):1442-4. PubMed ID: 19286834 [TBL] [Abstract][Full Text] [Related]
10. MDAnalysis: a toolkit for the analysis of molecular dynamics simulations. Michaud-Agrawal N; Denning EJ; Woolf TB; Beckstein O J Comput Chem; 2011 Jul; 32(10):2319-27. PubMed ID: 21500218 [TBL] [Abstract][Full Text] [Related]
11. Biogem: an effective tool-based approach for scaling up open source software development in bioinformatics. Bonnal RJ; Aerts J; Githinji G; Goto N; MacLean D; Miller CA; Mishima H; Pagani M; Ramirez-Gonzalez R; Smant G; Strozzi F; Syme R; Vos R; Wennblom TJ; Woodcroft BJ; Katayama T; Prins P Bioinformatics; 2012 Apr; 28(7):1035-7. PubMed ID: 22332238 [TBL] [Abstract][Full Text] [Related]
12. OpenStructure: a flexible software framework for computational structural biology. Biasini M; Mariani V; Haas J; Scheuber S; Schenk AD; Schwede T; Philippsen A Bioinformatics; 2010 Oct; 26(20):2626-8. PubMed ID: 20733063 [TBL] [Abstract][Full Text] [Related]
13. Mushu, a free- and open source BCI signal acquisition, written in Python. Venthur B; Blankertz B Annu Int Conf IEEE Eng Med Biol Soc; 2012; 2012():1786-8. PubMed ID: 23366257 [TBL] [Abstract][Full Text] [Related]
14. Interactive software tool to comprehend the calculation of optimal sequence alignments with dynamic programming. Ibarra IL; Melo F Bioinformatics; 2010 Jul; 26(13):1664-5. PubMed ID: 20472540 [TBL] [Abstract][Full Text] [Related]
15. Flexible informatics for linking experimental data to mathematical models via DataRail. Saez-Rodriguez J; Goldsipe A; Muhlich J; Alexopoulos LG; Millard B; Lauffenburger DA; Sorger PK Bioinformatics; 2008 Mar; 24(6):840-7. PubMed ID: 18218655 [TBL] [Abstract][Full Text] [Related]