getSeqInfo: Retrieve sequence length and other information

View source: R/sitadela.R

getSeqInfoR Documentation

Retrieve sequence length and other information

Description

This function retrieves sequence (chromosome) length and other information for a set of reference sequences for a sitadela supported organism. If the organism is supported by the getChromInfoFromUCSC of the GenomeInfoDb package, then this function is used, otherwise, a directo download from the UCSC golden path takes place to retrieve the required data.

Usage

    getSeqInfo(org, asSeqinfo = FALSE)

Arguments

org

a supported organism to retrieve sequence (aka chromosome) information for. See also addAnnotation about supported organisms.

asSeqinfo

return a Seqinfo object or a data.frame.

Value

The function returns a Seqinfo or a data.frame with the a subset of a Seqinfo information. See also Seqinfo.

Author(s)

Panagiotis Moulos

Examples

require(GenomeInfoDb)
s <- getSeqInfo("mm10")

pmoulos/sitadela documentation built on May 19, 2024, 3:52 a.m.