Aimed at graduate students and researchers, this book introduces the basic concepts and methods used in the statistical analysis and modeling of the DNA-based marker and phenotypic data that arise in agriculture, forestry, experimental biology, and other fields. Assuming a background in regression analysis and maximum likelihood approaches, the strength of this book lies in the construction of general models and algorithms for linkage analysis and QTL mapping in any kind of crossed pedigrees initiated with inbred lines of crops. It also provides plant and animal model systems for outbred lines in forest trees and wildlife species. The book includes a detailed description of each approach and the step-by-step demonstration of live-example analyses designed to explain the utilization and usefulness of statistical methods.