Make blast Database

Make blast Database

make_blast_db(
  file,
  dbtype = "nucl",
  args = NULL,
  quiet = FALSE,
  remove_gaps = TRUE
)

Arguments

file

(Required) A fasta file to create a database from.

dbtype

(Optional) Molecule type of database, accepts "nucl" for nucleotide or "prot" for protein.

args

(Optional) Extra arguments passed to BLAST

quiet

(Optional) Whether progress should be printed to console, default is FALSE

remove_gaps

(Optional) Whether gaps should be removed from the fasta file. Note that makeblastdb can fail if there are too many gaps in the sequence.