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Quick Start

Generate only sequence alignments for input.fasta:

cyrus engine submit blast input.fasta --mode nopssm 

Generate sequence alignments and PSSM for input.fasta:

cyrus engine submit blast input.fasta --mode pssm

Generate sequence alignments and patent information for input.fasta:

cyrus engine submit blast input.fasta --mode patent

Generate sequence alignments and return up to 1000 hits for input.fasta:

cyrus engine submit blast input.fasta --mode nopssm --max-target-sequences 1000

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FASTA file containing query sequence of interest.

Options

• --fasta-file

  • Input FASTA file with query sequence

• --mode

  • nopssm - run BLAST+ (blastp) for sequence alignments using NR database

  • pssm - run BLAST+ (psiblast) for sequence alignments and PSSM generation using NR database

  • patent - run BLAST+ (blastp) for sequence alignments and patent hits using PATAA database

• --max-target-sequences : sets the maximum number of sequences that can be returned for a query, default = 500

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