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hsphase (version 1.2.3)

Phasing and imputation of half-sib families using SNP data

Description

Identification of recombination events, haplotype reconstruction and sire imputation using half-sib family SNP data

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Version

Install

install.packages('hsphase')

Monthly Downloads

273

Version

1.2.3

License

GPL (>= 3)

Maintainer

Mohammad Ferdosi

Last Published

October 26th, 2013

Functions in hsphase (1.2.3)

rpoh

Reconstruct Pedigree Based on Matrix of Opposing Homozygotes
bmh

Block Partitioning
impute

Impute of Low Density SNP Marker to High Density (Parental strand)
co

Crossover Detection
hh

Heatmap of Half-sibs
hbp

Haplotype Blocks of Phased Data
readGenotype

Read and Check the Genotype File
pedigreeNaming

Fix Pedigree Errors
pm

Probability Matrix
hsphase-package

Phasing, Sire Imputation and Recombination Events for Half-sib Families
genotypes

Example Genotype Data Set
ssp

Sire Imputation and Phasing
ohg

Matrix of Opposing Homozygotes
para

Parallel Analysis of Data
imageplot

Image Plot of Blocking Structure
phf

Half-Sib Family Phasing
rplot

Recombination Plot
recombinations

Recombination Number
pedigree

Example Pedigree
map

Example Map File
hss

Half-sib Family Splitter
ohd

Opposing Homozygote Detection
cs

Chromosome Splitter
aio

All-in-one Phasing