FASTA

Category(ies): Bioinformatics

Latest Version alway stays at /usr/local/fasta-latest.
Latest version is point to /usr/local/fasta/fasta3 now.
Version 3 is located at /usr/local/fasta/fasta3.

Author / Distributor:
Author: Pearson WR, Lipman DJ
Department of Biochemistry, University of Virginia

Description:

The FASTA programs find regions of local or global similarity between Protein or DNA sequences, either by searching Protein or DNA databases, or by identifying local duplications within a sequence. FASTA can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.

altix: Not available on altix

pcluster: Not available on pcluster

rcluster,IOB: running program | Documentation | Installation | System

Running Program: also refer to submit jobs to queues at rcluster,IOB

/usr/local/fasta/fasta3/bin/fast34 queryseq libseq options

Sample of sub.sh

#!/bin/csh
cd working_directory
time /usr/local/fasta/fasta3/bin/fasta34 queryseq libseq -q > myout

bsub -q r1-24h -o test.%J.out -e test.%J.err ./sub.sh

Please refer to the RCC database for NCBI Sequence Libraries

Documentation: Online document available at FASTA website

Installation: source fasta3.shar.Z downloaded from FASTA website.
Choice of make file is: make -f Makefile.linux all

System(s): Unix