Consists of a long-term storage platform for single nucleotide polymorphism (SNP) data and sample phenotypes in a database. SNPQC computes a wide range of common SNP and sample-based quality control (QC) metrics. It constructs a database to store all genotypic, phenotypic and QC metrics outputs. This tool enables the production of allelic and genotypic frequencies, call rates, heterozygosity or Hardy-Weinberg equilibrium.
Assists users in the analysis and visualization of microarray data. SNPTools has several features such as creation of data sets that combines intensity values, physical positions of units and array information, plotting of arrays intensities on chromosomal maps, plotting of group mean/median intensities for two or more groups of arrays on chromosomal maps, or identification of segments of units that differ in intensity level between groups according to some definition of segment.
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