Split Genes By Chromosome (Arm)

Source: R/splitGenes.R

Split Genes By Chromosome (Arm). Input can be one of a matrix to be split into several matrices or a character vector of gene names to be split into several character vectors.

splitGenes(x, by = "chr")

Arguments

x

a matrix with gene names as rows or a character vector of gene names.
by

a string; one of 'chr' or 'arm', determining how the matrix or character vector should be split. Default: 'chr'

Value

if a matrix was provided, a list of matrices. If a character vector was provided, a list of character vectors. Both lists will be of length # of chromosome (arms) in the genome in question. Ie. length 24 for H.sapiens.

Examples

m = infercna::useData()
a = splitGenes(x = m)
b = splitGenes(x = rownames(m))
all(sapply(a, nrow) == lengths(b))
#> [1] TRUE
names(a)
#>  [1] "1"  "2"  "3"  "4"  "5"  "6"  "7"  "8"  "9"  "10" "11" "12" "13" "14" "15"
#> [16] "16" "17" "18" "19" "20" "21" "22" "X"  "Y" 
names(splitGenes(x = m, by = 'arm'))
#>  [1] "1p"  "1q"  "2p"  "2q"  "3p"  "3q"  "4p"  "4q"  "5p"  "5q"  "6p"  "6q" 
#> [13] "7p"  "7q"  "8p"  "8q"  "9p"  "9q"  "10p" "10q" "11p" "11q" "12p" "12q"
#> [25] "13q" "14q" "15q" "16p" "16q" "17p" "17q" "18p" "18q" "19p" "19q" "20p"
#> [37] "20q" "21p" "21q" "22q" "Xp"  "Xq"  "Yp"  "Yq"