Clonality (version 1.20.0)

splitChromosomes: Chromosome splitting

Description

Divides the chromosomes into p and q arms.

Usage

splitChromosomes(chrom,maploc)

Arguments

chrom

Vector of chromosomes. They should be numeric 1 to 22.

maploc

Vector of genomic locations. They should be in Kilobases.

Details

The function returns the vector of chromosome arms labeled "chr01p", "chr01q", etc. The split into arms is accomplished using the following centers (in Kb) for chromosomes 1 through 22: (122356.96, 93189.90, 92037.54 , 50854.87 ,47941.40, 60438.12 , 59558.27, 45458.05 , 48607.50, 40434.94 , 52950.78, 35445.46 , 16934.00, 16570.00, 16760.00 , 36043.30 , 22237.13, 16082.90 , 28423.62 , 27150.40, 11760.00, 12830.00 ).

Examples

#simulated data
 
set.seed(100)
chrom<-rep(c(1:22),each=100)
maploc<- runif(2200)* 200000
chromarm<-splitChromosomes(chrom,maploc)