plot.erv: Plot endogenous retroviral sequences in canine genome.

In cgmisc-team/cgmisc: Various functions useful in computational genetics, e.g. in GWAS

Plot endogenous retroviral sequences in canine genome.

Description

Plot endogenous retroviral sequences (ERV) in canine genome.

Usage

plot.erv(chr = NA, coords = c(NA, NA), src = "canFam3cgmisc.db",
  scale = c(0.2, 0.1))

Arguments

chr	chromosome, e.g. "chr17",
coords	a vector of coordinates,
src	source database, currently only canFam3 is supported,
scale	scaling factors for x and y axis.

Details

Plots -log10(Retrotector score) on the y axis (the higher the score is, the more probable that the hit represents an actual ERV) and coordinates in Mbp on the x axis. Width of the bars covers entire ERV. We display >300.

Value

null

Author(s)

Marcin Kierczak <[e-mail]>, Patric Jern <[e-mail]>

Examples

## Not run: plot.erv("chr16", coords=c(1e6,2e6))
 
## End(Not run)

cgmisc-team/cgmisc documentation built on Jan. 3, 2024, 9:52 p.m.