Prepare combined intensities from various input objects.
Usage
CNV.load(input, ...)
"CNV.load"(input, names = NULL)
"CNV.load"(input, names = NULL)
"CNV.load"(input, names = NULL)
"CNV.load"(input, names = NULL)
Arguments
input
Object of MethylSet class (minfi package), data.frame class, matrix class or numeric class.
...
Additional parameters (CNV.load generic, currently not used).
names
Vector specifying sample names. If not supplied, colnames are used. For MethylSet input, the first column of pData(input) matching 'name' (grep) is used.
Value
CNV.data object.
Details
This method gathers combined intensities of the Methylated and Unmethylated signals for all supplied probes. Probe IDs must be supplied as row names or in a seperate column named `ID_REF` or `TargetID`.
If column names match 'intensity', only those columns are used. Else, if column names match 'signal' or 'methylated', only those columns are used. Otherwise, all columns are used.