Packaged: 2021-09-08 09:26:46 UTC; DPreinerstorfer

Title: Calculation of Covariance Between Markers for Half-Sib Families
Authors@R: c(person("Dörte","Wittenburg", role = c("aut", "cre"),
person("Michael", "Doschoris", role = "aut"),
Description: The theoretical covariance between pairs of markers is calculated
from either paternal haplotypes and maternal linkage disequilibrium (LD) or
vise versa. A genetic map is required. Grouping of markers is based on the
correlation matrix and a representative marker is suggested for each group.
The implementation relies on paternal half-sib families and biallelic
markers. If maternal half-sib families are used, the roles of sire/dam are
swapped. Multiple families can be considered.
Wittenburg, Bonk, Doschoris, Reyer (2019) "Design of Experiments for
Fine-Mapping Quantitative Trait Loci in Livestock Populations"
Carlson, Eberle, Rieder, Yi, Kruglyak, Nickerson (2004) "Selecting a
maximally informative set of single-nucleotide polymorphisms for association
analyses using linkage disequilibrium" <doi:10.1086/381000>.
Imports: parallel, Matrix, foreach, rlist
Packaged: 2020-02-21 14:26:15 UTC; wittenburg

Package: hscovar
Type: Package
Title: Calculation of Covariance Between Markers for Half-Sib Families
Version: 0.2.1
Authors@R: c(person("Dörte","Wittenburg", role = c("aut", "cre"),
email = "wittenburg@fbn-dummerstorf.de"),
person("Michael", "Doschoris", role = "aut"),
person("Jan", "Klosa", role = "ctb"))
Description: The theoretical covariance between pairs of markers is calculated
from either paternal haplotypes and maternal linkage disequilibrium (LD) or
vise versa. A genetic map is required. Grouping of markers is based on the
correlation matrix and a representative marker is suggested for each group.
Employing the correlation matrix, optimal sample size can be derived for
association studies based on a SNP-BLUP approach.
The implementation relies on paternal half-sib families and biallelic
markers. If maternal half-sib families are used, the roles of sire/dam are
swapped. Multiple families can be considered.
Wittenburg, Bonk, Doschoris, Reyer (2019) "Design of Experiments for
Fine-Mapping Quantitative Trait Loci in Livestock Populations"
<doi:10.1101/2019.12.17.879106>.
Carlson, Eberle, Rieder, Yi, Kruglyak, Nickerson (2004) "Selecting a
maximally informative set of single-nucleotide polymorphisms for association
analyses using linkage disequilibrium" <doi:10.1086/381000>.
Depends: R (>= 3.5.0)
Imports: parallel, Matrix, foreach, rlist, pwr
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.0.2
NeedsCompilation: no
Packaged: 2020-04-15 14:39:05 UTC; wittenburg
Author: Dörte Wittenburg [aut, cre],
Michael Doschoris [aut],
Jan Klosa [ctb]
Maintainer: Dörte Wittenburg <wittenburg@fbn-dummerstorf.de>
Repository: CRAN
Date/Publication: 2020-04-15 23:20:02 UTC