Nothing
## Generates phylogenies with one or more root nodes
new_phylo<-function(nroot,number_of_clones) {
if (nroot > number_of_clones) {stop("Terminating Script: Number of roots cannot be greater than number of clones")}
inp<-vector(length=number_of_clones)
## Maximum number of roots is the number of clones
nroot=min(nroot,number_of_clones)
## When nroot is 0, we randomise the number of roots
if (nroot==0) {
i<-round(runif(1,0.5, number_of_clones+0.49))
inp[1:i]<-0
last_gen_end<-i
spaces_left<-number_of_clones-i
} else {
inp[1:nroot]<-0
last_gen_end<-nroot
spaces_left<-number_of_clones-nroot
}
last_gen_start<-1
while (spaces_left > 0) {
length_next_gen<-round(runif(1,0.5, spaces_left+0.49))
current_sample<-sample(rep(last_gen_start:last_gen_end, number_of_clones))
inp[(last_gen_end+1):(last_gen_end+length_next_gen)]<-current_sample[1:length_next_gen]
last_gen_start<-last_gen_end+1
last_gen_end<-last_gen_end+length_next_gen
spaces_left<-spaces_left-length_next_gen
}
return(inp)
}
## /end of new_phylo
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