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hsphase (version 2.0.1)
Phasing, Pedigree Reconstruction, Sire Imputation and Recombination Events Identification of Half-sib Families Using SNP Data
Description
Identification of recombination events, haplotype reconstruction, sire imputation and pedigree reconstruction using half-sib family SNP data
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2.0.3
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2.0.1
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Install
install.packages('hsphase')
Monthly Downloads
367
Version
2.0.1
License
GPL (>= 3)
Maintainer
Mohammad Ferdosi
Last Published
December 5th, 2016
Functions in hsphase (2.0.1)
Search functions
co
Crossover Detection
pogc
Parent Offspring Group Constructor
ohd
Opposing Homozygote Detection
readGenotype
Read and Check the Genotype File
pedigree
Example Pedigree
hh
Heatmap of Half-sibs
rpoh
Reconstruct Pedigree Based on Matrix of Opposing Homozygotes
pedigreeNaming
Fix Pedigree Errors
para
Parallel Analysis of Data
phf
Half-Sib Family Phasing
pm
Probability Matrix
impute
Impute of Low Density SNP Marker to High Density (Paternal Strand)
bmh
Block Partitioning
hsphase-package
Phasing, Pedigree Reconstruction, Sire Imputation and Recombination Events Identification for Half-sib Families
hbp
Haplotype Blocks of Phased Data
map
Example of Map File
ssp
Sire Imputation and Phasing
cs
Chromosome Splitter
ohg
Matrix of Opposing Homozygotes
imageplot
Image Plot of Blocking Structure
rplot
Recombination Plot
hss
Half-sib Family Splitter
genotypes
Example of Genotype Data Set
recombinations
Recombination Number
aio
All-in-one Phasing
ohplot
Opposing Homozygotes Plot