R: General loader for txdb

loadTxdb {ORFik}

R Documentation

General loader for txdb

Description

Useful to allow fast TxDb loader like .db

Usage

loadTxdb(txdb, chrStyle = NULL)

Arguments

`txdb`	a TxDb file, a path to one of: (.gtf ,.gff, .gff2, .gff2, .db or .sqlite) or an ORFik experiment
`chrStyle`	a GRanges object, TxDb, FaFile, or a `seqlevelsStyle` (Default: NULL) to get seqlevelsStyle from. Is chromosome 1 called chr1 or 1, is mitocondrial chromosome called MT or chrM etc. Will use 1st seqlevel-style if more are present. Like: c("NCBI", "UCSC") -> pick "NCBI"

Value

a TxDb object

Examples

library(GenomicFeatures)
# Get the gtf txdb file
txdbFile <- system.file("extdata", "hg19_knownGene_sample.sqlite",
                        package = "GenomicFeatures")
txdb <- loadDb(txdbFile)

[Package ORFik version 1.7.21 Index]