legacy_decode19 {ibdsim2} | R Documentation |
Legacy version of the decode19
map
Description
A legacy version of the built-in human recombination map, based on
Halldorsson et al., 2019. The implementation of this map used in ibdsim2 was
updated in v2.3.0, adding the physical endpoint of each chromosome (this was
previously lacking), and using a better thinning algorithm to reduce the raw
data given by Halldorsson et al. (2019). See also loadMap()
.
Usage
legacy_decode19
Format
A genomeMap
object: a list of 23 chromMap
objects. Each
chromMap
is a list containing two numeric matrices, named male
and
female
, and carries these attributes:
-
physStart
– first physical position (Mb) on the chromosome -
physEnd
– last physical position (Mb) on the chromosome -
physRange
– physical length,physEnd - physStart
(Mb) -
mapLen
– length-2 numeric: centiMorgan length of male and female strands -
chrom
– chromosome label -
Xchrom
– logical flag used by simulators for X-inheritance
Examples
loadMap("decode19") # new
loadMap("legacy_decode19") # legacy