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pould  

Phased or Unphased Linkage Disequilibrium
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("pould", "1.0.1")



Attach the package and use:
library("pould")
Maintained by
Steven Mack
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2020-04-15
Latest Update: 2020-10-16
Description:
Computes the D', Wn, and conditional asymmetric linkage disequilibrium (ALD) measures for pairs of genetic loci. Performs these linkage disequilibrium (LD) calculations on phased genotype data recorded using Genotype List (GL) String or columnar formats. Alternatively, generates expectation-maximization (EM) estimated haplotypes from phased data, or performs LD calculations on EM estimated haplotypes. Performs sign tests comparing LD values for phased and unphased datasets, and generates heat-maps for each LD measure. Described by Osoegawa et al. (2019a) , and Osoegawa et. al. (2019b) .
How to cite:
Steven Mack (2020). pould: Phased or Unphased Linkage Disequilibrium. R package version 1.0.1, https://cran.r-project.org/web/packages/pould
Previous versions and publish date:
1.0.0 (2020-04-15 09:40)
Other packages that cited pould R package
View pould citation profile
Other R packages that pould depends, imports, suggests or enhances
Functions, R codes and Examples using the pould R package
Some associated functions: LD.heat.map . LD.sign.test . LDWrap . cALD . drb1.dqb1.demo . extractLoci . hla.hap.demo . parseGenotypes . trimAlleles . writeVector . 
Some associated R codes: LD.heatmap.R . LD.sign.test.R . LocusExtractor.R . TrimAlleles.R . cALD_FamilyFunctions.R . data.R . parseGenotypes.R .  Full pould package functions and examples
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