Motivation: PCR amplification of DNA is a key preliminary step in many applications of high-throughput sequencing technologies, yet design of novel barcoded primers and taxonomic analysis of novel or existing primers remains a challenging task.
Results: PrimerProspector is an open-source software package that allows researchers to develop new primers from collections of sequences and to evaluate existing primers in the context of taxonomic data.
Availability: PrimerProspector is open-source software available at http://pprospector.sourceforge.net
Contact: rob.knight@colorado.edu
Supplementary information: Supplementary data are available at Bioinformatics online.