WriteGFF {aCGH.Spline}R Documentation

Function to write a GFF formatted file.

Description

Output a GFF formatted file for use in the Signal-Map software (Nimblegen software).

Usage

WriteGFF(filename, x)

Arguments

filename - the name for the output file.
x - a ".temp" formatted data stucture.

Details

This will output a GFF formatted file containing the log2 ratio for all probes which were not flagged.

Value

GFF file for input into the Signal-Map software.

Author(s)

Tomas William Fitzgerald

See Also

http://www.nimblegen.com/products/lit/signalmap1.9usersguide.pdf

Examples


chr = rnorm(1000,1,0)

for (x in 2:24) {
        chr = c(chr, rnorm(1000,x,0)) 
}

mat = matrix(ncol=8, nrow=length(chr))
mat[,1] = log2(rnorm(length(chr),1000,150) / rnorm(length(chr),800,180))
mat[,2] = rnorm(length(chr),1000,150)
mat[,3] = rnorm(length(chr),800,180)
mat[,4] = chr
mat[,5] = seq(1,length(chr), 1)
mat[,6] = seq(1,length(chr), 1)
mat[,7] = 0
mat[,8] = 0

WriteGFF("test.gff", mat) 


[Package aCGH.Spline version 2.2 Index]