customMap {ibdsim2} | R Documentation |
Custom recombination map
Description
Create custom recombination maps for use in ibdsim()
.
Usage
customMap(x)
Arguments
x |
A data frame or matrix. See details for format specifications. |
Details
The column names of x
must include either
-
chrom
,mb
andcm
(sex-averaged map)
or
-
chrom
,mb
,male
andfemale
(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.
Value
An object of class genomeMap
.
See Also
Examples
# 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
[Package ibdsim2 version 2.0.0 Index]