read.impute:
Read genotypes imputed by the IMPUTE2 program
Description
The IMPUTE2 program generates, for each SNP and each subject,
posterior probabilities for the three genotypes. This function reads
such data as a SnpMatrix object, storing the posterior
probabilities to as much accuracy allowed by a one-byte coding
The row names for the output object. Note that these correspond to
groups of three columns in the input file. If not supplied, names
are generated as Sample1, Sample2 etc.
nsnp
The number of SNPs to be read in. This corresponds with the number
of lines in the input file. If not supplied, the function does a
preliminary pass to determine the number of lines
snpcol
Which column of the input will be used as the SNP name. Default is
column 2
Value
an object of class SnpMatrix
Details
No provision is made for data for the X chromosome. Such data must be
first read as a SnpMatrix and subsequently coerced to an
XSnpMatrix object