KGrapher is a tool for creating and displaying KGraphs, a data visualization system that the Kardia Research Group has developed to display the complex relationships between the univariate and bivariate associations among an outcome of interest, a set of covariates, and a set of genetic factors such as single nucleotide polymorphisms (SNPs). It allows for easy viewing and interpretation of genetic associations, correlations among covariates and SNPs, and information about the replication and cross-validation of the associations. The KGraph allows the user to more easily investigate multicollinearity and confounding through visualization of the multidimensional correlation structure underlying genetic associations. It emphasizes gene-environment and gene-gene interaction, both important components of any genetic system that are often overlooked in association frameworks. KGrapher is available at http://www.epidkardia.sph.umich.edu/software/kgrapher and the Application Note is available from Bioinformatics at http://bioinformatics.oxfordjournals.org/cgi/content/abstract/btl510?ijkey=AjPzBfJg1ShKP9q&keytype=ref. ChromoScan is an implementation of a genome-based scan statistic that detects genomic regions which are statistically significant for targeted measurements such as genetic associations with disease, gene expression profiles, DNA copy number variations, as well as other genome based measurements. A Java graphic user interface (GUI) is provided to allow users to select appropriate data transformations and thresholds for defining the significant events. ChromoScan is available at http://www.epidkardia.sph.umich.edu/software/chromoscan/ and the Application Note is available from Bioinformatics at http://bioinformatics.oxfordjournals.org/cgi/content/abstract/btl503?ijkey=O6LsQiAe8s0w1sd&keytype=ref.