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hsphase (version 1.2.4)
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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Install
install.packages('hsphase')
Monthly Downloads
367
Version
1.2.4
License
GPL (>= 3)
Maintainer
Mohammad Ferdosi
Last Published
October 30th, 2013
Functions in hsphase (1.2.4)
Search functions
co
Crossover Detection
map
Example Map File
cs
Chromosome Splitter
phf
Half-Sib Family Phasing
pedigreeNaming
Fix Pedigree Errors
bmh
Block Partitioning
ohg
Matrix of Opposing Homozygotes
hh
Heatmap of Half-sibs
readGenotype
Read and Check the Genotype File
impute
Impute of Low Density SNP Marker to High Density (Paternal Strand)
ohd
Opposing Homozygote Detection
hbp
Haplotype Blocks of Phased Data
ssp
Sire Imputation and Phasing
imageplot
Image Plot of Blocking Structure
rplot
Recombination Plot
pedigree
Example Pedigree
para
Parallel Analysis of Data
recombinations
Recombination Number
aio
All-in-one Phasing
pm
Probability Matrix
genotypes
Example Genotype Data Set
hss
Half-sib Family Splitter
hsphase-package
Phasing, Sire Imputation and Recombination Events for Half-sib Families
rpoh
Reconstruct Pedigree Based on Matrix of Opposing Homozygotes