This archive contains a C programme to calculate a Wright-Fisher model of cancer development.
This tools models a population growing exponentially from size n to N in g generations.
It allows to specify d driver sites with selective advantage s; p passenger sites, which are neutral and
o other sites with selective advantage t. Sites mutate at rates u (drivers, other sites) and v, respectively.
As easy as
$ make
As easy as
$ ./clonex -h
usage: clonex [-N:n:u:v:s:t:g:R:f:r:p:d:o:wh]
N - Final population size (default = 1000000000)
n - Initial population size (default = 1)
u - Mutation rate (default = 1e-07)
v - Mutation rate passengers (default = u)
s - Selective advantage (default = 0.01)
t - Selective advantage of other drivers (default = 0.015)
g - Number of generations (default = 1800)
d - Number of drivers (default = 1000)
p - Number of passengers (default = 0)
o - Number of other drivers (default = 0)
R - Replicates (default = 1)
r - Random seed (default = time)
f - File directory (Required! Make sure that the directory exists!)
G - Output every G generations (default = g)
h - This help
$ ./clonex -N 1000000 -n 1000000 -s 0.01 -d 1000 -u 1e-9 -f foo -p 1000000 -v 1e-8 -g 2000