Table 1.

Replicon command-line parameters.

Parameter name	Parameter action
Flow-sorter	Comma-separated list of flow-sort boundaries
Indices	Measure S-phase and replicator engagement fraction
Initiate	Measure the global initiation rate as a function of S-phase fraction
Nascent	Simulate nascent strand measurements
Ncells	Number of cells (default: 1000)
Nfork	Number of replication forks (default: 50)
Nmeas	Number of measurements (default: 2000)
Ntherm	Number of thermalization sweeps (default: 80000)
Overwrite	Overwrite result file
Pprogress	Probability to move replication fork (ignored if 2nd column is present in landscape file) (default: 1)
Prelease	Probability to release replication fork (ignored if 3nd column is present in landscape file) (default: 0)
Singlemolecule	Simulate single molecule experiments
Stepsize	Sweeps per measurement (default: 20000)
Threads	Number of threads (default: 1)
Timing	Perform direct timing measurements