Tools (1-20 of 22)

1. Accurate Chemical Master Equation (ACME)

   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.

2. biomoca

   30 May 2006 | | Contributor(s):: Reza Toghraee, Umberto Ravaioli

   Ion channel simulator

3. BioMOCA Suite

   04 Feb 2008 | | Contributor(s):: David Papke, Reza Toghraee, Umberto Ravaioli, Ankit Raj

   Simulates ion flow through a channel.

4. CNT Mobility

   26 Apr 2009 | | Contributor(s):: Yang Zhao, Albert Liao, Eric Pop

   Simulate field effect carrier mobility in back-gated CNTFET devices at low field

5. Illinois Tools: Basic Bulk Silicon Transport Data at 300K

   27 Oct 2009 | | Contributor(s):: Kyeong-hyun Park, Mohamed Mohamed, Nahil Sobh, Fawad Hassan

   Calculations of doped bulk silicon transport data (new version release)

6. Illinois Tools: NanoGromacs

   27 Feb 2008 | | Contributor(s):: Dairui Chen, Derrick Kearney, Jay Mashl, Nahil Sobh, Eric Jakobsson

   Implementation of the popular molecular dynamics software suite GROMACS

7. Illinois Tools: NanoGromacsDemo

   30 Oct 2006 | | Contributor(s):: Dairui Chen, Derrick Kearney, Jay Mashl, Nahil Sobh, Eric Jakobsson

   Implementation of the popular molecular dynamics software suite GROMACS

8. imageJ

   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.

9. Molecular Dynamics Showcase

   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

10. Molecular Dynamics Showcase Builder

    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.

11. nanoDDSCAT

    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.

12. nanoDDSCAT+

    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.

13. Nanoindentation

    28 Oct 2013 | | Contributor(s):: Taha Goudarzi, AbderRahman N Sobh, Kathy Walsh, Nahil Sobh, Iwona Jasiuk

    Nanoindentation for Mechanical Characterization of Soft Materials

14. nanoJoule

    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.

15. Quantum and Semi-classical Electrostatics Simulation of SOI Trigates

    19 Feb 2008 | | Contributor(s):: Hyung-Seok Hahm, Andres Godoy

    Generate quantum/semi-classical electrostatic simulation results for a simple Trigate structure

16. Traction Force Microscopy

    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.

17. [Illinois]: Avoidance Learn Simulation

    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).

18. [Illinois]: Avoidance Learn Simulation with 'Call' Neuron

    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.

19. [Illinois]: Error Gradient Estimations Due to Parallel Perturbation of Weights

    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.

20. [Illinois]: Error Gradient Estimations Due to Perturbation of One Weight at a Time

    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.