Apr 152011
 

G-POT 1.0 / PRIMER-ILP 1.0

:: DESCRIPTION

G-POT is a primer set selection tool that minimizes the number of primers needed to amplify a set of loci while ensuring that each locus is amplified by a pair of primers located within L basepairs of each other, where L is an input parameter.

PRIMER-ILP is a primer set selection tool that minimizes the number of primers needed to amplify a set of loci while ensuring that each locus is amplified by a pair of primers located within L basepairs of each other, where L is an input parameter. The code uses the mixed integer linear programming solver from the GNU Linear Programming Package (GLPK) to solve the IP problem created from the input target sequences.

::DEVELOPER

Bioinformatics Lab , Computer Science & Engineering Dept. University of Connecticut

:: SCREENSHOTS

Command Line

:: REQUIREMENTS

:: DOWNLOAD

G-POTPRIMER-ILP

:: MORE INFORMATION

Citation:

K.M. Konwar, I.I. Mandoiu, A.C. Russell, and A.A. Shvartsman.
Improved Algorithms for Multiplex PCR Primer Set Selection with Amplification Length Constraints,
Proc. 3rd Asia-Pacific Bioinformatics Conference (APBC), pp. 41-50, 2005.

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