Description Usage Arguments Value Examples
Estimate the number of meioses and the probabilities of sharing 0, 1 and 2 alleles IBD between pairs.
1 | getIBDparameters(ped.genotypes, number.cores = 1)
|
ped.genotypes |
a named list containing |
number.cores |
the number of cores used for parallel execution. |
A named list containing autosome_parameters
and X_chromosome_parameters
.
Both autosome_parameters
and X_chromosome_parameters
are data frames with columns:
Family 1 ID (type "character"
)
Individual 1 ID (type "character"
)
Family 2 ID (type "character"
)
Individual 2 ID (type "character"
)
The number of meiosis (type "numeric"
or "integer"
)
Probability of sharing 0 alleles IBD (type "numeric"
)
Probability of sharing 1 allele IBD (type "numeric"
)
Probability of sharing 2 alleles IBD (type "numeric"
)
headed fid1, iid1, fid2, iid2, m, ibd0, ibd1
and ibd2
, respectively.
Each row describes parameters for a unique pair of samples.
autosome_parameters
will be NULL
if chromosomes 1-22 are all excluded
from ped.genotypes
and X_chromosome_parameters
will be NULL
if
chromosome 23 is excluded from ped.genotypes
.
1 2 3 4 5 | # estimate parameters
my_parameters <- getIBDparameters(ped.genotypes = example_genotypes,
number.cores = 1)
str(my_parameters)
|
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