Description Usage Arguments Details Value Author(s) See Also Examples
Replace the genotype data for a cross with a version imputed either
by simulation with sim.geno
, by the Viterbi
algorithm with argmax.geno
, or simply filling in
genotypes between markers that have matching genotypes.
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cross |
An object of class |
method |
Indicates whether to impute using a single simulation
replicate from |
error.prob |
Assumed genotyping error rate used in the calculation of the penetrance Pr(observed genotype | true genotype). |
map.function |
Indicates whether to use the Haldane, Kosambi or Carter-Falconer map function when converting genetic distances into recombination fractions. |
This function is written so that one may perform rough genome scans by marker regression without having to drop individuals with missing genotype data. We must caution the user that little trust should be placed in the results.
With method="no_dbl_XO"
, there may be missing genotypes
remaining (between two markers that show a recombination event, at the
ends of the chromosomes, or with incompletely informative genotypes).
The input cross
object with the genotype data replaced by an
imputed version. Any intermediate calculations (such as is produced
by calc.genoprob
, argmax.geno
and sim.geno
) are removed.
Karl W Broman, kbroman@biostat.wisc.edu
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