Retrieve a data subset
This function returns a subset of copy number data according to the input and the specified chromosomes and/or samples.
subsetData(data, chrom = NULL, sample = NULL, sep="\t", ...)
data |
either a data frame or the name of a tab-separated file from which copy number data can be read. The rows of the data frame or file should represent the probes. Column 1 must hold numeric or character chromosome numbers, column 2 the numeric local probe positions, and subsequent columns the numeric copy number measurements for one or more samples. |
chrom |
a numeric or character vector with chromosome(s) for which data should be selected. If unspecified, all chromosomes in |
sample |
a numeric vector indicating for which sample(s) data should be selected. The number(s) should correspond to the sample's place (in order of appearance) in |
sep |
the separator of the input files if |
... |
optional parameters to be passed to |
A data frame containing the desired subset of data.
Gro Nilsen
#Load lymphoma data data(lymphoma) #Select data only for samples 1 and 6 and chromosomes 1:9: sub.data <- subsetData(data=lymphoma,chrom=c(1:9),sample=c(1,6))
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