NAME

       perlprimer - graphically specify amplicon of DNA or mRNA sequences and design primers

SYNOPSIS

       perlprimer

DESCRIPTION

       PerlPrimer  calculates  primer  melting  temperature  using  J.  SantaLucia's extensive nearest-neighbour
       thermodynamic parameters. To adjust for the salt conditions of the PCR,  PerlPrimer  uses  the  empirical
       formula  derived  by  von  Ahsen, et al. (2001) and allows the user to specify the concentration of Mg2+,
       dNTPs and primers, or use standard PCR conditions. The result is a highly accurate prediction  of  primer
       melting  temperature, giving rise to a maximum yeild of product when amplified.  PerlPrimer is written in
       Perl and requires Perl/Tk. In addition, for QPCR functionality PerlPrimer requires the open-source Spidey
       executable from NCBI. The program is designed to be cross-platform compatible and has been developed  and
       tested  on both Microsoft Windows and GNU/Linux-based operating systems. Users have also reported success
       using the program under Mac OS X.

SEE ALSO

       A very nice tutorial on  http://perlprimer.sourceforge.net  is  also  distributed  as  a  debian  package
       perlprimer-doc.

AUTHOR

       perlprimer was written by Owen Marshall <owenjm@users.sourceforge.net>

       This  manual  page was assembled by Steffen Moeller <steffen_moeller@gmx.de>, for the Debian project (but
       may be used by others).

                                                 6 January 2005                                    PERLPRIMER(1)