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hscovar  

Calculation of Covariance Between Markers for Half-Sib Families
View on CRAN: Click here


Download and install hscovar package within the R console
Install from CRAN:
install.packages("hscovar")

Install from Github:
library("remotes")
install_github("cran/hscovar")

Install by package version:
library("remotes")
install_version("hscovar", "0.4.2")



Attach the package and use:
library("hscovar")
Maintained by
Dörte Wittenburg
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2020-03-04
Latest Update: 2021-04-13
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 (2020) "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" .
How to cite:
Dörte Wittenburg (2020). hscovar: Calculation of Covariance Between Markers for Half-Sib Families. R package version 0.4.2, https://cran.r-project.org/web/packages/hscovar
Previous versions and publish date:
0.1.2 (2020-03-04 11:00), 0.2.1 (2020-04-16 01:20), 0.4.0 (2020-08-06 14:30)
Other packages that cited hscovar R package
View hscovar citation profile
Other R packages that hscovar depends, imports, suggests or enhances
Functions, R codes and Examples using the hscovar R package
Some associated functions: AR1 . CovMat . CovarMatrix . ExpectMat . H.sire . Haplo2Geno . LDdam . LDsire . calcvar . coeff.beta.k . matLD . pos.chr . pwr.normtest . pwr.snpblup . search.best.n.bisection . simpleM . startvalue . tagSNP . testdata . 
Some associated R codes: H.sire.R . covmat.R . functions.R . matLD.R . pos.chr.R . powercalc.R . tagSNP.R . testdata.R .  Full hscovar package functions and examples
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