Download the entire ENSEMBL transcript DB for bacteria.

Source: R/refdb.R

Download the entire ENSEMBL transcript DB for bacteria.

download_bacterial_transcripts(
  out = "transcripts",
  what = "cdna",
  np = 8,
  remove_redundant = TRUE
)

Arguments

out

Where to store the downloaded transcript files.

what

Download in which format. Can be "cdna" or "protein" to download reverse transcribed DNA (cDNA) or protein sequences.

np

How many parallel download processes to use.

remove_redundant

Whether to remove alternative assemblies for the same strain.

Value

A data table containing the downloaded species and assemblies.