Prepare gene model from an object of TxDb

Generate an object of track for viewTracks by given parameters.

geneModelFromTxdb(
  txdb,
  orgDb,
  gr,
  chrom,
  start,
  end,
  strand = c("*", "+", "-"),
  txdump = NULL
)

Arguments

txdb

An object of TxDb

orgDb

An object of "OrgDb"

gr

An object of GRanges.

chrom

chromosome name, must be a seqname of txdb

start

start position

end

end position

strand

strand

txdump

output of as.list(txdb), a list of data frames that can be used to make the db again with no loss of information.

Value

Generate a list of track from a TxDb object.

See also

See Also as importScore, importBam, viewTracks

Examples

library(TxDb.Hsapiens.UCSC.hg19.knownGene)
#> Loading required package: GenomicFeatures
#> Loading required package: AnnotationDbi
library(org.Hs.eg.db)
#> 
trs <- geneModelFromTxdb(TxDb.Hsapiens.UCSC.hg19.knownGene,
                         org.Hs.eg.db,
                         chrom="chr20", 
                         start=22560000, 
                         end=22565000, 
                         strand="-")