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hsphase (version 2.0.3)
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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Version
2.0.3
2.0.2
2.0.1
2.0.0
1.2.6
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1.2.4
1.2.3
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Install
install.packages('hsphase')
Monthly Downloads
298
Version
2.0.3
License
GPL-3
Maintainer
Mohammad Ferdosi
Last Published
February 16th, 2024
Functions in hsphase (2.0.3)
Search functions
ohg
Matrix of Opposing Homozygotes
.maf
Calculate Minor Allele Frequency (MAF)
.fastdist
Calculate Genotypic Distances
aio
All-in-one Phasing
hsphase-package
Phasing, Pedigree Reconstruction, Sire Imputation and Recombination Events Identification for Half-sib Families
hss
Half-sib Family Splitter
cs
Chromosome Splitter
para
Parallel Analysis of Data
map
Example Map File for Genetic Data
rplot
Recombination Plot
rpoh
Reconstruct Pedigree Based on Matrix of Opposing Homozygotes
pedigreeNaming
Fix Pedigree Errors
impute
Impute of Low Density SNP Marker to High Density (Paternal Strand)
imageplot
Image Plot of Blocking Structure
phf
Half-Sib Family Phasing
ohd
Opposing Homozygote Detection
pedigree
Example Pedigree Data Set
ssp
Sire Imputation and Phasing
ohplot
Opposing Homozygotes Plot
pm
Probability Matrix
pogc
Parent Offspring Group Constructor
recombinations
Recombination Number
readGenotype
Read and Check the Genotype File
co
Crossover Detection
.simulateHalfsib
Simulate Half-Sibling Genotypes
genotypes
Example of Genotype Data Set
hbp
Haplotype Blocks of Phased Data
hh
Heatmap of Half-sibs
bmh
Block Partitioning