Get header from SubjectID — get_fasta_header • BLASTr

Retrieve complete sequence header from BLAST DB based on SubjectIDs

Usage

get_fasta_header(
  id,
  db_path,
  env_name = "blastr-blast-env",
  verbose = "silent"
)

Arguments

id: SubjectID from BLAST results or any NCBI Nucleotide identifier.
db_path: Complete path do formatted BLAST database.
env_name: The name of the conda environment used to run command-line tools (i.e. "blastr-blast-env").
verbose: Should condathis::run() internal command be shown?

Value

Complete identifier for the SubjectID as is on the database.

Examples

if (FALSE) { # \dontrun{
dna_fasta_path <- fs::path_package("BLASTr", "extdata", "minimal_db_blast", ext = "fasta")
temp_db_path <- fs::path_temp("minimal_db_blast")
make_blast_db(fasta_path = dna_fasta_path, db_path = temp_db_path)
get_fasta_header(id = "AP011979.1", db_path = temp_db_path)
} # }