get.erv: Get endogenous retroviral sequences in canine genome

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

Get endogenous retroviral sequences in canine genome

Description

Returns a list of endogenous retroviral sequences (ERV) in a predefined chunk of the canine genome.

Usage

get.erv(chr = NA, coords = c(NA, NA), src = "canFam3cgmisc.db")

Arguments

chr	chromosome, e.g. "chr17",
coords	a vector of coordinates,
src	source database, currently only canFam3 is supported.

Value

a dataframe containing the following columns: id, chromosome, strand, start, end, length, score, subgenes (names)

Author(s)

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

Examples

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

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