R/refdb.R
download_bacterial_transcripts.Rd
Download the entire ENSEMBL transcript DB for bacteria.
download_bacterial_transcripts(out = "transcripts", what = "cdna", np = 8, remove_redundant = TRUE)
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. |
A data table containing the downloaded species and assemblies.