zeroIBD | R Documentation |
Estimate the probability of no IBD sharing in a pairwise relationship.
zeroIBD(sims, ids = NULL, threshold = 0, unit = "cm")
sims |
A list of genome simulations, as output by |
ids |
A vector with two ID labels. If NULL (default), these are deduced
from the |
threshold |
A nonnegative number (default:0). Only IBD segments longer than this are included in the computation. |
unit |
The unit of measurement for |
A list with the following two entries:
zeroprob
: The fraction of sims
in which ids
have no IBD sharing
stErr
: The standard error of zeroprob
###
# The following example computes the probability of
# no IBD sharing between a pair of fourth cousins.
# We also show how the probability is affected by
# truncation, i.e., ignoring short segments.
###
# Define the pedigree
x = cousinPed(4)
cous = leaves(x)
# Simulate (increase N!)
s = ibdsim(x, N = 10)
# Probability of zero ibd segments. (By default all segs are used)
zeroIBD(s, ids = cous)
# Re-compute with nonzero threshold
zeroIBD(s, ids = cous, threshold = 1, unit = "cm")
zeroIBD(s, ids = cous, threshold = 1, unit = "mb")
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