There are many command line parameters that can be applied to a BLAST search to customize the results. Here are a few of the most commonly used parameters. For a complete listing please see the BLAST® Command Line Applications User Manual.
|
DATABASE |
DESCRIPTION |
|---|---|
| query | Input file name |
| db | Database being searched |
| out | Output file name |
| query_loc | Start and stop position in the query sequence to specify a shorter section of the sequence to be searched. (Format: start-stop) |
| num_descriptions | Number of one-line descriptions of hits to report in the output file |
| num_alignments | Number of alignments of hits to display in the output file |
| num_threads | Number of threads (CPUs) to use in the blast search |