dumpUniprotDb: Feeding BED: Dump and preprocess flat data files from Uniprot

In patzaw/BED: Biological Entity Dictionary (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

patzaw/BED documentation built on Dec. 13, 2024, 4:29 a.m.