Main tools:
This is meant to assist in local blast searches. No blast databases will be maintained in this container. Be sure to mount your relevant Volumes with --volumes or -v when using the command line.
blast+ is actually a suite of tools. blast+ v.2.13.0 includes:
ls /ncbi-blast-2.13.0+/bin/
blast_formatter
blastdb_aliastool
blastn
blastx
deltablast
legacy_blast.pl
makeprofiledb
rpstblastn
tblastn_vdb
windowmasker
blast_formatter_vdb
blastdbcheck
blastn_vdb
cleanup-blastdb-volumes.py
dustmasker
makeblastdb
psiblast
segmasker
tblastx
blast_vdb_cmd
blastdbcmd
blastp
convert2blastmask
makembindex
rpsblast
tblastn
Currently not supported, but could be:
get_species_taxids.sh # requires E-direct
update_blastdb.pl # requires perl
# making a blast database
makeblastdb -dbtype nucl -in fasta.fa
# query
tblastn -query query.fasta -db fasta.fa -outfmt '6' -out blast_hits.txt
More documentation can be found at https://www.ncbi.nlm.nih.gov/books/NBK569856/ and https://www.ncbi.nlm.nih.gov/books/NBK279690/