Description Usage Arguments Value Author(s) References See Also Examples
View source: R/GenomeGraphs-classes.R
Creates an object of class Transcript. This represents all known transcript structures in Ensembl.
1 | makeTranscript(id, type, biomart, dp = NULL)
|
id |
An identifier used to specify of which gene/transcript the transcript structures should be retrieved |
type |
The type of identifiers used, examples are ensembl\_gene\_id, hgnc\_symbol,entrezgene. See listAttributes function of thebiomaRt package for more info |
biomart |
Mart object, created by the useMart function of biomaRt |
dp |
object of class DisplayPars, determines the display of features on the plot |
An object of class Transcript
Steffen Durinck and Jim Bullard
~put references to the literature/web site here ~
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 | ##---- Should be DIRECTLY executable !! ----
##-- ==> Define data, use random,
##-- or do help(data=index) for the standard data sets.
## The function is currently defined as
function (id, type, biomart, dp = NULL)
{
if (missing(id))
stop("Need to specify a gene identifier for creating a Transcript")
pt <- getClass("Transcript")@prototype
if (is.null(dp))
dp <- pt@dp
if (missing(type))
type = pt@type
new("Transcript", id = id, type = type, biomart = biomart,
dp = dp)
}
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