chromsizes: Get chromosome lengths for a specific genome build.

In andrewparkermorgan/mouser: Colour Schemes and Constants Related to Mouse Genetics

Get chromosome lengths for a specific genome build.

Description

Get chromosome lengths for a specific genome build.

Usage

chromsizes(build = c("mm9", "mm10", "37", "38", "NCBIm37", "GRCm38", "cf3",
  "hg19"), as.seqinfo = FALSE, ...)

Arguments

build	name of a genome build: one of "mm9", "mm10", "37", "38"
as.seqinfo	logical; if TRUE, return a Seqinfo object
...	ignored

Details

Chromosome names for "mm9" and "mm10" are in the "chr1", ..., "chrM" (UCSC) style. If you prefer Ensembl ("1", ..., "MT) style, use "37" or "38", respectively. If a Seqinfo object is requested but the appropriate package is not installed, the function will default to a named vector but issue a warning.

Value

either a named vector of chromosome lengths or a Seqinfo object for use with Bioconductor stack

See Also

Seqinfo

andrewparkermorgan/mouser documentation built on May 14, 2022, 8:06 p.m.