dumpUniprotDb {BED}

Feeding BED: Dump and preprocess flat data files from Uniprot

Description

Not exported to avoid unintended modifications of the DB.

Usage

dumpUniprotDb(
  taxOfInt,
  divOfInt,
  release,
  ddir,
  ftp = "ftp://ftp.expasy.org/databases/uniprot",
  env = parent.frame(n = 1)
)

Arguments

taxOfInt

the organism of interest (e.g., "9606" for human, "10090" for mouse or "10116" for rat)

divOfInt

the taxonomic division to which the organism belong (e.g., "human", "rodents", "mammals", "vertebrates")

release

the release of interest (check if already downloaded)

ddir

path to the directory where the data should be saved

ftp

location of the ftp site

env

the R environment in which to load the tables when built