Description Usage Arguments Details Value References See Also Examples
View source: R/map_constructors.R
This function loads one of the built-in genetic maps. Currently, the available map is based on the publication by Halldorsson et al. (2019).
1 |
map |
The name of the wanted map, possibly abbreviated. Currently, the only valid choice is "decode19" (default). |
chrom |
A numeric vector indicating which chromosomes to load. Default:
|
uniform |
A logical. If FALSE (default), the complete inhomogeneous map is used. If TRUE, a uniform version of the same map is produced, i.e. with the correct lengths, but constant recombination rate along each chromosome. |
sexAverage |
A logical, by default FALSE. If TRUE, a sex-averaged map is returned, with equal recombination rates for males and females. |
For reasons of speed and efficiency, the built-in map is a thinned version of the published map (Halldorsson et al., 2019), keeping around 60 000 data points.
By setting uniform = TRUE
, a uniform version of the map is returned, in
which each chromosome has the same genetic lengths as in the original, but
with constant recombination rates. This gives much faster simulations and may
be preferable in some applications.
An object of class genomeMap
.
Halldorsson et al. Characterizing mutagenic effects of recombination through a sequence-level genetic map. Science 363, no. 6425 (2019).
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