Description Usage Arguments Details Value Author(s) References See Also Examples

`geneFlowT`

and `geneFlowTinv`

creates gene flow matrix (T)
and its inverse (Tinv), while `gameteFlowM`

creates gamete flow
matrix (M). `mendelianSamplingD`

creates a mendelian sampling
covariance matrix (D).

1 2 3 4 |

`x` |
Pedigree |

`sort` |
logical, for the computation the pedigree needs to be sorted, but results are sorted back to original sorting (sort=TRUE) or not (sort=FALSE) |

`names` |
logical, should returned matrix have row/colnames; this can be used to get leaner matrix |

`matrix` |
logical, should returned value be a diagonal matrix or a vector |

`...` |
arguments for other methods |

`geneFlowT`

returns a matrix with coefficients that show the flow
of genes from one generation to the next one etc. `geneFlowTinv`

is
simply the inverse of `geneFlowT`

, but calculated as *I - M*,
where *M* is gamete flow matrix with coefficients that represent
parent gamete contribution to their offspring. `mendelianSamplingD`

is another matrix (*D*) for construction of relationship additive
matrix via decomposition i.e. *A=TDT'* (Henderson, 1976). Mrode
(2005) has a very nice introduction to these concepts.

Take care with `sort=FALSE, names=FALSE`

. It is your own
responsibility to assure proper handling in this case.

Matrices of *n * n* dimension, with coeficients as described in the
details, where *n* is number of subjects in `x`

Gregor Gorjanc

Henderson, C. R. (1976) A simple method for computing the inverse of a
numerator relationship matrix used in prediction of breeding
values. *Biometrics* **32**(1):69-83

Mrode, R. A. (2005) Linear models for the prediction of animal breeding values. 2nd edition. CAB International. ISBN 0-85199-000-2 http://www.amazon.com/gp/product/0851990002

`Pedigree`

, `relationshipAdditive`

,
`kinship`

and `inbreeding`

1 2 3 4 5 6 7 8 9 10 11 | ```
if(require(gdata))
data(Mrode2.1)
Mrode2.1$dtB <- as.Date(Mrode2.1$dtB)
x2.1 <- Pedigree(x=Mrode2.1, subject="sub", ascendant=c("fat", "mot"),
ascendantSex=c("M", "F"), family="fam", sex="sex",
generation="gen", dtBirth="dtB")
fractions(geneFlowT(x2.1))
fractions(geneFlowTinv(x2.1))
fractions(gameteFlowM(x2.1))
mendelianSamplingD(x2.1)
``` |

GeneticsPed documentation built on Nov. 17, 2017, 1:13 p.m.

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