Biological software developped in Serrano's laboratory

Command Line Version

SmartCell command line arguments:

Smartcell.exe [-nrem : -nsvm : -ode : -hybrid : -tauleap] [-initialAmountFileNumber NumberOfInitialAmountFile] [-initialAmountFiles initialAmountFiles] [-t simtime] [-nsimu nsim u] inputfile
-nrem Run the simulation with the Next Reaction Event Method.
-nsvm Run the simulation with the Next Subvolume Method.
-ode Run the simulation using the Ordinary Differential Equation solver.
-hybrid Run the simulation using the Hybrid Method.
-tauleap Run the simulation using the Tau Leap Method.
-initialAmountFileNumber Define the number of files which describe the initial amount.
NumberOfInitialAmountFile Number of files which define the initial amount.
-initialAmountFile Define the files which describe the initial amount.
initialAmountFile Files which define the initial amount.
-odeParametersByDefault Define the default value for the ODE parameters.
-odeParametersFile Define the file with all the ODE parameters.
odeParametersFile File with all the ODE parameters.
-t Define the time of the simulation. simtime Time of the end of simulation.
-nsimu Define the number of the simulation. nsimu Number of the simulation.
inputfile File with all input data.