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simulate an environment with distributed whole-cell agents
Eternally execute tasks
Release of the whole cell E. coli model.
Live-cell image analysis toolkit
Ribosome profiling pipeline for bacterial samples created by Fuad Mohammad.
Stochastic simulations in python
Workflow for E. coli glycolysis ODE model parameter estimation.
Efficiently Scaling Up Video Annotation with Crowdsourced Marketplaces. IJCV 2012
Mycoplasma genitalium whole-cell model
Web-based software program creating and animating signaling network diagrams
WholeCellDB is a hybrid SQL/HDF database for storing and retrieving whole-cell model predictions.
Matlab code for the mathematical model of the kinase translocation reporter
WholeCellKB is a collection of free, open-source model organism databases designed specifically to enable comprehensive, dynamic simulations of entire cells and organisms.
Data visualization for whole-cell models
Parallelized whole-cell model