debian man page for famap

FASTA(1)							   User Commands							  FASTA(1)

NAME
       famap - prepare Fasta sequence database for re-PCR searches

SYNOPSIS
       famap [-hV] -b mmapped-file [-t cvt] [fafile ...]

       famap [-hV] -d mmapped-file [ord ...]

       famap [-hV] -l mmapped-file [ord ...]

DESCRIPTION
       The program famap is part of the e-PCR suite and is used to build mmapped-file from FASTA files for reverse e-PCR searches

OPTIONS
       where cvt (conversion table) is one of:

	      off - as is (default)

	      n   - nucleotide [acgtnACGTN] allowed,

	      N   - nucleotide uppercase allowed [ACGTN]

	      nx  - nucleotide with ambiguity codes allowed

	      NX  - nucleotide with ambiguity codes uppercase

EXAMPLE
	famap -tN -b genome.famap org/chr_*.fa

	fahash -b genome.hash -w 12 -f3 ${PWD}/genome.famap

	re-PCR -s genome.hash -n1 -g1 ACTATTGATGATGA AGGTAGATGTTTTT 120-200

       See famap(1) and re-pcr(1)

SEE ALSO
       /usr/share/doc/ncbi-epcr/README.txt

       bioperl(1), e-pcr(1), famap(1) and re-pcr(1)

AUTHORS
       This  manual page was written by Andreas Tille <tille@debian.org> for the Debian system (but may be used by others).  Permission is granted
       to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 2 any later version published by
       the Free Software Foundation.

       On Debian systems, the complete text of the GNU General Public License can be found in /usr/share/common-licenses/GPL.

Fasta converter for e-PCR version 2.3.9 			    April 2008								  FASTA(1)