Disclaimer: this was thrown together in a couple of hours one night, there may be bugs. Pull requests welcome.

The graph is 100kb wide. The histogram is frequency of reads.

• cells: number of cells in the population.
• synthesis time: simulated synthesis time (seconds).
• firing probability: the probability this origin will fire each second.
• ori: position of the origin.
• left/right fork rates: how fast each fork progresses (nt/second).
• rate noise: how much noise to add to each fork's rate (per fork, proportion of total rate).
• undercut rate: proportion of reads that get missed due to undercutting.
• overcut rate: proportion of reads to cut apart after generation.
• overcut exponent: kludge to change distribution of cut positions (1 to cut uniformly, higher to tend to cut closer to ends).
• block locations: position of blocking elements (does nothing if block time is zero).
• block times: how long to pause at a particular block (seconds).