The function recodes haplotypes of individuals in consecutive numeric values.
It can be viewed as an internal function.
The user does not have to call it by himself.
Usage
recode.hap(hap, all.marq)
Arguments
hap
character matrix (number of individuals x number of markers)
which contains the haplotype of individuals.
all.marq
results provided by allele.marq() function,
list of alleles (coded with character values) for each marker.
Value
the returned value is a numeric matrix (number of individuals x number of markers)
which contains the recoded haplotype of individuals.
References
publication to be submitted: C. Cierco-Ayrolles, S. Dejean, A. Legarra, H. Gilbert,
T. Druet, F. Ytournel, D. Estivals, N. Oumouhou and B. Mangin.
Combining linkage analysis and linkage disequilibrium for QTL fine mapping in animal pedigrees.