All rearrangements are assumed complete, leaving no unrejoined ends. Their values are obtained either from the literature, or by trial and error using the program itself and comparing simulated to experimental frequencies. Thereafter per-cell frequencies for all kinds of simple or complex aberrations can be simulated. Typically a million cells can be simulated. If more cells are needed the simulation can be repeated.
Users can get such additional results automatically if they modify the source code slightly.
Calculation time depends on the cell number, average number of reactive DSBs and platform. This software is a test version prepared by A.M. Chen, P. Hahnfeldt, L. Hlatky, and R.K. Sachs at UC Berkeley and Harvard. The assistance of V. Kaganskiy, J. Lucas and D. Brenner is gratefully acknowledged. The software is freely available to all non-commercial users. Users must check that it works for their purposes.