| plotTranscriptsFromUCSC {wiggleplotr} | R Documentation |
A wrapper around the plotTranscripts function. See the documentation for (plotTranscripts)
for more information. Note that this function is much slower than (plotTranscripts) or
(plotTranscriptsFromEnsembldb) functions, because indivudally extracting exon
coordinates from txdb objects is quite inefficient.
plotTranscriptsFromUCSC(orgdb, txdb, gene_names, transcript_ids = NULL, ...)
orgdb |
UCSC OrgDb object. |
txdb |
UCSC TxDb obejct. |
gene_names |
List of gene genaes to be plot. |
transcript_ids |
Optional list of transcript ids to be plot. (default = NULL) |
... |
Additional parameters to be passed to plotTranscripts |
Transcript plot.
#Load OrgDb and TxDb objects with UCSC gene annotations
require("org.Hs.eg.db")
require("TxDb.Hsapiens.UCSC.hg38.knownGene")
orgdb = org.Hs.eg.db
txdb = TxDb.Hsapiens.UCSC.hg38.knownGene
plotTranscriptsFromUCSC(orgdb, txdb, "NCOA7", transcript_ids = c("ENST00000438495.6", "ENST00000368357.7"))