Provides a row-linear model to assess sensitivity and precision of genomic platforms. consensus permits users to make direct comparisons of platforms with each other and can be utilized to evaluate locus-specific biases and characteristics distinct to both the platforms themselves and the genome measured. This tool is independent of the biological variation in the data to assess the measurement quality and can be used as a screening procedure to detect platforms with deviant measurements.
Simulates collections of independent genomic data sets, and performs training and validation with predicting algorithms. SimulatorZ is a package intended primarily to simulate collections of independent genomic data sets, as well as performing training and validation with predicting algorithms. It supports ExpressionSet and RangedSummarizedExperiment objects. It purposes functions to generate useful values from the true models for further analysis, to filter genes by Integrative Correlation and many others.
Simulates genomic prediction accuracy based on deterministic formulas. ShinyGPAS is a web application that produces interactive graphs. This tool can be used for: (1) interactive exploration of potential factors that infuence prediction accuracy in genome-enabled prediction; (2) simulation of achievable prediction accuracy prior to genotyping individuals; or (3) supporting in-class teaching.