blastp
Protein-Protein BLAST.
TLDR
Align two or more sequences using blastp, with the e-value threshold of 1e-9, pairwise output format, output to screen
$ blastp -query [query.fa] -subject [subject.fa] -evalue [1e-9]
Align two or more sequences using blastp-fast
$ blastp -task blastp-fast -query [query.fa] -subject [subject.fa]
Align two or more sequences, custom tabular output format, output to file
$ blastp -query [query.fa] -subject [subject.fa] -outfmt '[6 qseqid qlen qstart qend sseqid slen sstart send bitscore evalue pident]' -out [output.tsv]
Search protein databases using a protein query, 16 threads to use in the BLAST search, with a maximum number of 10 aligned sequences to keep
$ blastp -query [query.fa] -db [blast_database_name] -num_threads [16] -max_target_seqs [10]
Search the remote non-redundant protein database using a protein query
$ blastp -query [query.fa] -db [nr] -remote
Display help (use -help for detailed help)
$ blastp -h
