fasta-make-index

Usage:

fasta-make-index <sequence file> [options]

Description

Make an index for a FASTA file for use by fasta-fetch.

Input

<sequence file>

The name of a file of sequences in FASTA format.

Output

Writes an index file to <sequence file>.index.

Options

Option Parameter Description Default Behavior
General Options
-f  Overwrite an existing file if one exists.
-sp  Make a swissprot index by stripping all but the last part of sequence names.
-l  Index by sequence name and lowercased name.
-aa  Include first amino acid index found in parens.
-gc  genechip format: first field in pipes
-gi  If the identifier starts with "gi|number" replace it with number.