Map object.This S4 function is used to create a new Map object. The input information is taken
from an input DNA report in matrix format, plus a map or manifest file.
newMap(map, freq, ...)# S4 method for data.frame,data.frame
newMap(map, freq)
# S4 method for character,character
newMap(map, freq, type = "C", status = 0)
An input map or manifest file. A typical manifest file has the following columns: Index, Name, Chromosome, Position, GenTrain Score, SNP, ILMN Strand, Customer Strand, and NormID.
An input object containing genotypes, which can be either the name of the input DNA report file name object, or a data frame containing genotypes. A DNA report file has 9 header lines (which will be skipped when reading). The column names are on the tenth lines and the genotypes start from the eleventh lines, separated by tabs.
Extra parameters as needed.
The types of a SNP, which by default is "C".
The status of a SNP, which by default is all 0 (i.e., non-obligatory SNPs).
An Map object.