Difference between revisions of "FASTA"
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Revision as of 02:41, 10 August 2012
Description
The FASTA programs find regions of local or global (new) similarity between Protein or DNA sequences, either by searching Protein or DNA databases, or by identifying local duplications within a sequence. Other programs provide information on the statistical significance of an alignment. Like BLAST, FASTA can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.
Execution Environment and Modules
To use fasta with the environment modules system at HPC the following commands are available:
Get module information for fasta:
$module spider fasta
Load the default application module:
$module load fasta
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
- HPC_FASTA_DIR - directory where fasta is located.
- HPC_FASTA_BIN - executable directory
Available documentation
Several man pages are available:
- fasta3, fastf3, fasts3, map_db, prss3, pvcomp
Type "man MANPAGE" to access them at the command line.