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Create custom recombination maps for use in ibdsim()
.
customMap(x)
A data frame or matrix. See details for format specifications.
An object of class genomeMap
.
The column names of x
must include either
chrom
, mb
and cm
(sex-averaged map)
or
chrom
, mb
, male
and female
(sex-specific map)
Upper-case letters are allowed in these names. The mb
column should contain
physical positions in megabases, while cm
, male
, female
give the
corresponding genetic position in centiMorgans.
# NOT RUN {
# A map including two chromosomes.
df1 = data.frame(chrom = c(1, 1, 2, 2),
mb = c(0, 2, 0, 5),
cm = c(0, 3, 0, 6))
map1 = customMap(df1)
map1
# Use columns "male" and "female" to make sex specific maps
df2 = data.frame(chrom = c(1, 1, 2, 2),
mb = c(0, 2, 0, 5),
male = c(0, 3, 0, 6),
female = c(0, 4, 0, 7))
map2 = customMap(df2)
map2
# }
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