Feeding BED: Dump table from the Ensembl core database — dumpEnsCore • BED

Not exported to avoid unintended modifications of the DB.

Usage

dumpEnsCore(
  organism,
  release,
  gv,
  ddir,
  toDump = c("attrib_type", "gene_attrib", "transcript", "external_db", "gene",
    "translation", "external_synonym", "object_xref", "xref", "stable_id_event"),
  env = parent.frame(n = 1)
)

Arguments

organism: the organism to download (e.g. "Homo sapiens").
release: Ensembl release (e.g. "83")
gv: version of the genome (e.g. "38")
ddir: path to the directory where the data should be saved
toDump: the list of tables to download
env: the R environment in which to load the tables when downloaded