SNPNB: analyzing neighboring-nucleotide biases on single nucleotide polymorphisms (SNPs).

ABSTRACT

UNLABELLED SNPNB is a user-friendly and platform-independent application for analyzing Single Nucleotide Polymorphism NeighBoring sequence context and nucleotide bias patterns, and subsequently evaluating the effective SNP size for the bias patterns observed from the whole data. It was implemented by Java and Perl. SNPNB can efficiently handle genome-wide or chromosome-wide SNP data analysis in a PC or a workstation. It provides visualizations of the bias patterns for SNPs or each type of SNPs. AVAILABILITY: SNPNB and its full description are freely available at http//bioinfo.vipbg.vcu.edu/SNPNB/