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

View source: R/extended.shared.R

Compute the common shared environment matrix for a set of related subjects. The function is generic, and can accept a pedigree, or pedigreeList as the first argument.

1 2 3 4 5 6 7 | ```
extended.shared(id, rho = 1, theta = 1, ...)
## S3 method for class 'pedigreeList'
extended.shared(id, rho = 1, theta = 1, ...)
## S3 method for class 'pedigree'
extended.shared(id, rho = 1, theta = 1, ...)
``` |

`id` |
either a pedigree object or pedigreeList object |

`rho` |
The correlation between spouses |

`theta` |
The partial path coefficient from parents to offspring |

`...` |
Any number of optional arguments. Not used at the moment |

When called with a pedigreeList, i.e., with multiple families, the routine will create a block-diagonal-symmetric ‘bdsmatrix’ object. Since the [i,j] value of the result is 0 for any two unrelated individuals i and j and a ‘bdsmatix’ utilizes sparse representation, the resulting object is often orders of magnitude smaller than an ordinary matrix. When called with a single pedigree and ordinary matrix is returned.

a matrix of shared environment coefficients

Claus Ekstrom claus@rprimer.dk

1 2 3 4 5 6 7 8 | ```
library(kinship2)
test1 <- data.frame(id =c(1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14),
mom =c(0, 0, 0, 0, 0, 2, 2, 4, 0, 6, 8, 0, 10, 11),
dad =c(0, 0, 0, 0, 0, 1, 1, 3, 0, 5, 7, 0, 9, 12),
sex =c(1, 2, 1, 2, 1, 2, 1, 2, 1, 2, 2, 1, 2, 2))
tped <- with(test1, pedigree(id, dad, mom, sex))
extended.shared(tped)
``` |

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