Partitioning of Individual Autozygosity into Multiple Homozygous-by-Descent Classes

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Documentation for package ‘RZooRoH’ version 0.3.2.1

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BBB_NMP_ad_subset Example for "ad" format specification
BBB_NMP_GP_subset Example for "gp" format specification
BBB_NMP_pl_subset Example for "pl" format specification
BBB_PE_gt_subset Example for "gt" format specification
BBB_samples A file with names or IDs for ten samples.
cumhbd Computes the realized inbreeding coefficient
genoex Subset of a dataset with genotypes for 20 sheeps
genosim Example from a small simulated data set
probhbd Extracts the HBD probabilities from the zres object
rara_mix10r The result of an analysis on 22 sheeps from Rasa Aragonesa population.
realized Extracts the realized autozygosity from the zres object
rohbd Extracts the HBD segments from the zres object
soay_mix10r The result of an analysis on 110 sheeps from the Soay population.
typs Subset of a dataset with genotypes for 6 individuals from a cattle population.
typsfrq A file with marker allele frequencies for the cattle population.
wilt_mix10r The result of an analysis on 23 sheeps from Wiltshire population.
zoodata Read the genotype data file
zoodoris Returns number of HBD segments (or genome proportion) per size bins for DoRIS.
zoomodel Define the model for the RZooRoH
zooplot_hbdseg Plot HBD segments identified with the ZooROH model
zooplot_individuals Plot individual curves with proportion of the genome in each HBD class or cumulated proportion in HBD classes with rates smaller than a threshold.
zooplot_partitioning Plot the partitioning of the genome in different HBD classes for each individual
zooplot_prophbd Plot proportion of the genome associated with different HBD classes
zoorun Run the ZooRoH model
zoosimd Realizes a simulation using a zooroh data set and a zooroh model