SeqParSib {sequoia} | R Documentation |
Call main Fortran part of sequoia, and convert its output to a list with dataframes.
SeqParSib(ParSib = "par", Specs = NULL, GenoM = NULL, LhIN = NULL, AgePriors = NULL, Parents = NULL, quiet = FALSE)
ParSib |
either "par" to call parentage assignment, or "sib" to call the rest of the algorithm. |
Specs |
a named vector with parameter values, as generated by
|
GenoM |
matrix with genotype data, size nInd x nSnp |
LhIN |
life history data: ID - sex - birth year |
AgePriors |
matrix with agepriors, size Specs["nAgeClasses"] by 8. |
Parents |
matrix with rownumbers of assigned parents, size nInd by 2 |
quiet |
suppress messages |
A list with
PedigreePar or Pedigree |
the pedigree |
MaybeParent or MaybeRel |
Non-assigned likely relatives |
MaybeTrio |
Non-assigned parent-parent-offspring trios |
DummyIDs |
Info on dummies |
TotLikParents or TotLikSib |
Total log-likelihood per iteration |
For a detailed description of the output see sequoia