Local BLAST Search

Task Name: local-blast+

Performs a search on a local BLAST database using BLAST+.

BLAST+ is used as an external tool and must be installed on your system.

Parameters:

• toolpath — Path to an appropriate BLAST executable (e.g., blastn, blastp, etc.). By default, the path specified in the Application Settings is applied. [String, Optional, Default: “default”]

• tmpdir — Directory for temporary files. By default, the path specified in the Application Settings is applied. [String, Optional, Default: “default”]

• in — Semicolon-separated list of input sequence files. [String, Required]

• dbpath — Path to the BLAST database files. [String, Required]

• dbname — Base name of the BLAST+ database files. [String, Required]

• out — Output Genbank file, where the results of the search are stored as annotations. [String, Required]

• name — Name of the annotations. [String, Optional, Default: “blast result”]

• p — Type of the BLAST search. [String, Optional, Default: “blastn”]

The following values are available:

• blastn

• blastp

• blastx

• tblastn

• tblastx

• e — Expectation value threshold. [Number, Optional, Default: 10]

Example:

ugene local-blast+ –in=input.fa –dbpath=. –dbname=mydb –out=output.gb