recombRate: Produce recombination rate plot.

In gloriayxf/gloriayxf.github.io: Graphical Display of Pairwise Linkage Disequilibria Between SNPs

Description

Plot average rates of recombination from the deCODE genetic map for a specified genetic sequence.

Usage

recombRate(minRange, maxRange, chromosome, genome = "hg19", vp = viewport(x = 0,
y = 0.99, height = 0.04, just = c("left", "top")), view = "dense")

Arguments

minRange	The sequence minimum range in base pairs.
maxRange	The sequence maximum range in base pairs.
chromosome	A character string identifying the chromosome.
genome	The genome assembly to use. The default is hg19, the most recent human genome assembly on the UCSC genome browser.
vp	A viewport.
view	Display mode. Possible values are "dense" (the default), "squish", "pack" and "full".

Value

A grob representing recombination rates.

Author(s)

Sigal Blay <[e-mail]> and more

References

http://genome.ucsc.edu/cgi-bin/hgTrackUi?g=recombRate

Examples

## Not run: 
grid.newpage()
recombRate(129000000, 140000000, "chr7", "hg18")
grid.newpage()
pushViewport(viewport(width=0.8, x=0.2, just="left"))
recombRate(129000000, 140000000, "chr7", "hg18", view="full")
popViewport()

## End(Not run)

gloriayxf/gloriayxf.github.io documentation built on May 18, 2019, 3:42 p.m.