run_diamond_blastp: BLAST query protein FASTA file against a subject species...

In arendsee/phylostratr: Analyze phylostratigraphic data

BLAST query protein FASTA file against a subject species author urmi

Description

BLAST query protein FASTA file against a subject species author urmi

Usage

run_diamond_blastp(
  query_fastafile,
  subject_taxid,
  blastdb,
  blastresult = paste0(subject_taxid, ".tab"),
  nthreads = 1,
  seg = FALSE,
  verbose = TRUE
)

Arguments

query_fastafile	A protein FASTA file for the focal species
subject_taxid	The subject NCBI taxon ID
blastdb	A path to a diamond database (as returned from make_blast_database)
blastresult	The output TAB-delimited result file
nthreads	Number of threads
seg	Whether to mask the query protein sequences
verbose	Print progress messages

Value

The path to the tabular BLAST result output

arendsee/phylostratr documentation built on Dec. 31, 2022, 10:22 a.m.