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A computational method for rapid prediction of amyloid beta-fibril structures
0.0 out of 5 stars
27 Aug 2015 | Tools | Contributor(s): Hamed Tabatabaei Ghomi, Markus A. Lill
Accurate Chemical Master Equation (ACME)
4.0 out of 5 stars
20 Jun 2013 | Tools | Contributor(s): Youfang Cao, Anna Terebus, John Feser, Nahil Sobh, Jie Liang
Direct solution method of discrete Chemical Master Equation (dCME) for the steady state, the time evolution of full probability landscapes, and the first passage time distribution (FPTD) in...
Atomic Resolution Brownian Dynamics
29 Nov 2016 | Tools | Contributor(s): Chris Maffeo
GPU-accelerated Brownian dynamics simulation tool for biomolecular and nanotechnological systems
Bimodal Polymer Nano Brush
08 Aug 2011 | Tools | Contributor(s): Rikkert Jan Nap, Fritzlaine Roche, Marcelo Carignano
Structure and Thermodynamics of Bimodal Polymer Nano Brushes
Bio Composite Simulator
5.0 out of 5 stars
26 Oct 2011 | Tools | Contributor(s): Sebastian Lee, Pablo Daniel Zavattieri, Alejandro Strachan
Simulation mechanical response of bio composites using rigid particles
4.5 out of 5 stars
14 Mar 2008 | Tools | Contributor(s): Reza Toghraee, Umberto Ravaioli
Ion channel simulator
14 Feb 2008 | Tools | Contributor(s): David Papke, Reza Toghraee, Umberto Ravaioli, Ankit Raj
Simulates ion flow through a channel.
28 Mar 2008 | Tools | Contributor(s): Pradeep R. Nair, Jonghyun Go, Graeme John Landells, Tejas Rajiv Pandit, Muhammad Alam, Xin Jin, Piyush Dak, Ankit Jain
BioSensorLab is a tool to evaluate and predict the performance parameters of Biosensors.
cadnano to PDB File Converter
3.0 out of 5 stars
13 Jan 2014 | Tools | Contributor(s): Jejoong Yoo, AbderRahman N Sobh, Chen-Yu Li, Aleksei Aksimentiev
Accepts CadNano files in the form of *.json and outputs a file in *.pdb which can be read by programs such as VMD.
Coarse Graining of Crystalline Cellulose
24 Oct 2016 | Tools | Contributor(s): Kuo Tian, Mehdi Shishehbor, Pablo Daniel Zavattieri
Bio-inspired Crystalline Nano-Cellulose coarse graining toolkit
Crystalline Cellulose - Atomistic Toolkit
05 Aug 2013 | Tools | Contributor(s): Mateo Gómez Zuluaga, Robert J. Moon, Fernando Luis Dri, Pablo Daniel Zavattieri
Cyber-Infrastructure for Imaging and Simulation of Molecular and Cellular Mechanics (CISMCM)
21 Dec 2009 | Tools | Contributor(s): Raheem Syed, Umberto Ravaioli, Gabriel Popescu, Nahil Sobh
Simulation-Driven Science Project
DNA Origami Visualization Tools
11 Jan 2017 | Tools | Contributor(s): Jessica Nash
Visualize DNA origami designs
29 Apr 2016 | Tools | Contributor(s): Federico Pittino, Paolo Scarbolo, Matteo , Andrea Cossettini, Luca Selmi
A tool to simulate Electrolyte/Insulator/Semiconductor systems in one dimension
10 Oct 2016 | Tools | Contributor(s): Aldi Hoxha, Paolo Scarbolo, Andrea Cossettini, Federico Pittino, Luca Selmi
A tool to simulate Ion Sensitive Field Effect Transistors in two dimensions
Exciton Dynamics Lab for Light-Harvesting Complexes (GPU-HEOM)
28 Feb 2013 | Tools | Contributor(s): Christoph Kreisbeck, Tobias Kramer
Non-Markovian calculation of absorption spectra, 2d echo-spectra, coherences and polulation dynamics for light-harvesting complexes.
Forced Protein Unfolding
08 Jul 2009 | Tools | Contributor(s): Ashlie Martini, Benjamin Rafferty, Zachary Carl Flohr
Molecular dynamics simulation of forced protein unfolding
13 Jan 2014 | Tools | Contributor(s): AbderRahman N Sobh, Chen-Yu Li, Nahil Sobh, Aleksei Aksimentiev
Using molecular dynamic simulation - explore the interactions between a molecular structure and substrate when they are linked together.
Gaussian processes 1D
22 Jul 2015 | Tools | Contributor(s): Ilias Bilionis, Juan Camilo Lopez, Yinuo Li
Allows the user to sample functions from a Gaussian process.
Gaussian processes 2D
03 Aug 2015 | Tools | Contributor(s): Ilias Bilionis, Yinuo Li, Juan Camilo Lopez
Gaussian Process 2D Sampling