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1. NERDSS NERDSS Public

   NonEquilibrium Reaction-Diffusion Self-assembly Simulator

   C++ 14 10

2. StoichiometricBalance StoichiometricBalance Public

   Given 1) a protein interaction network, with interfaces resolved and 2) Copy numbers for some of the proteins, Quantify degree of stoichiometric balance in protein copy numbers

   C++ 4 1

3. multi_assembly multi_assembly Public

   Jupyter Notebook 3 4

4. ionerdss ionerdss Public

   Primarily python code for developing user-friendly analysis for model set-up (input) and analysis of output

   Jupyter Notebook 3 5

5. KineticAssembly_AD KineticAssembly_AD Public

   Python code for numerical simulations of self-assemly with optimization by automatic differentiation

   Jupyter Notebook 3 4

6. FPR_rot FPR_rot Public

   Rotational rigid-body reaction-diffusion code

   C++ 2