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Molecular Dynamics Showcase Builder
Tools | 09 Nov 2015 | Contributor(s):: Michael McLennan, Nicholas K Kisseberth, George A. Howlett, Jim Slopsema, Aleksei Aksimentiev, Chen-Yu Li
Tool to create showcases for the Molecular Dynamics Showcase viewer.
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Traction Force Microscopy
Tools | 17 Apr 2014 | Contributor(s):: Bara Saadah, AbderRahman N Sobh, Alireza Tofangchi
This is a tool for particle motion tracking with respect to physical forces.
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nanoDDSCAT+
Tools | 13 Aug 2014 | Contributor(s):: AbderRahman N Sobh, Sarah White, Jeremy Smith, Nahil Sobh, Prashant K Jain
Combines the Discrete Dipole Scattering (DDSCAT) tool with the DDAConvert tool for a single workflow for custom shapes.
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Nanoindentation
Tools | 28 Oct 2013 | Contributor(s):: Taha Goudarzi, AbderRahman N Sobh, Kathy Walsh, Nahil Sobh, Iwona Jasiuk
Nanoindentation for Mechanical Characterization of Soft Materials
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nanoDDSCAT
Tools | 23 Apr 2013 | Contributor(s):: Prashant K Jain, Nahil Sobh, Jeremy Smith, AbderRahman N Sobh, Sarah White, Jacob Faucheaux, John Feser
Calculate scattering and absorption of light by targets with arbitrary geometries and complex refractive index.
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Molecular Dynamics Showcase
Tools | 06 Jul 2013 | Contributor(s):: Michael McLennan, Chen-Yu Li, john stone, Aleksei Aksimentiev, George A. Howlett
View interesting features of a molecular dynamics trajectory file
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[Illinois]: Error Gradient Estimations Due to Parallel Perturbation of Weights
Tools | 07 Jul 2013 | Contributor(s):: AbderRahman N Sobh, Jessica S Johnson, NanoBio Node
This tool trains two-layered networks of sigmoidal units to associate patterns using simultaneous perturbation of weights.
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[Illinois]: Perturbative Reinforcement Learning to Develop Distributed Representations
Tools | 10 Jul 2013 | Contributor(s):: AbderRahman N Sobh, Jessica S Johnson, NanoBio Node
This tool trains three-layered networks of sigmoidal units to associate patterns.
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[Illinois]: Perturbative Reinforcement Learning Using Directed Drift
Tools | 10 Jul 2013 | Contributor(s):: AbderRahman N Sobh, Jessica S Johnson, NanoBio Node
This tool trains two-layered networks of sigmoidal units to associate patterns using a real-valued adaptation of the directed drift algorithm.
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[Illinois]: Error Gradient Estimations Due to Perturbation of One Weight at a Time
Tools | 29 Jun 2013 | Contributor(s):: AbderRahman N Sobh, Jessica S Johnson, NanoBio Node
This tool trains two-layered networks of sigmoidal units to associate patterns using perturbation of one weight at a time.
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[Illinois]: Avoidance Learn Simulation with 'Call' Neuron
Tools | 25 Jun 2013 | Contributor(s):: AbderRahman N Sobh, NanoBio Node, Jessica S Johnson
This script simulates avoidance learning as a reinforcement learning with two upper motoneurons (sumo and fumo) and one "call" neuron.
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[Illinois]: Avoidance Learn Simulation
Tools | 20 Jun 2013 | Contributor(s):: AbderRahman N Sobh, NanoBio Node, Jessica S Johnson
This script simulates avoidance conditioning as reinforcement learning with two upper motoneurons (SUMO and FUMO).
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Accurate Chemical Master Equation (ACME)
Tools | 20 May 2013 | 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 biological networks.
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CNT Mobility
Tools | 26 Apr 2009 | Contributor(s):: Yang Zhao, Albert Liao, Eric Pop
Simulate field effect carrier mobility in back-gated CNTFET devices at low field
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Illinois Tools: Basic Bulk Silicon Transport Data at 300K
Tools | 27 Oct 2009 | Contributor(s):: Kyeong-hyun Park, Mohamed Mohamed, Nahil Sobh, Fawad Hassan
Calculations of doped bulk silicon transport data (new version release)
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imageJ
Tools | 03 Apr 2009 | Contributor(s):: Raheem Syed, Nahil Sobh, Umberto Ravaioli, Gabriel Popescu, Mohamed Mohamed
It can display, edit, analyze, process, save and print 8-bit, 16-bit and 32-bit images. It can read many image formats.
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Illinois Tools: NanoGromacsDemo
Tools | 30 Oct 2006 | Contributor(s):: Dairui Chen, Derrick Kearney, Jay Mashl, Nahil Sobh, Eric Jakobsson
Implementation of the popular molecular dynamics software suite GROMACS
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nanoJoule
Tools | 28 May 2008 | Contributor(s):: Feifei Lian, Feifei Lian, Feifei Lian
This tool performs a self-consistent simulation of the current-voltage curve of a metallic single-wall carbon nanotube with Joule heating.
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biomoca
Tools | 30 May 2006 | Contributor(s):: Reza Toghraee, Umberto Ravaioli
Ion channel simulator
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Quantum and Semi-classical Electrostatics Simulation of SOI Trigates
Tools | 19 Feb 2008 | Contributor(s):: Hyung-Seok Hahm, Andres Godoy
Generate quantum/semi-classical electrostatic simulation results for a simple Trigate structure