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Index
Cover Front Matter Part I. Essential Concepts
1. A Population Genomics Lexicon
Part II. Statistical Methods for Analyzing Genomes in Populations
2. Processing and Analyzing Multiple Genomes Alignments with MafFilter 3. Data Management and Summary Statistics with PLINK 4. Exploring Population Structure with Admixture Models and Principal Component Analysis 5. Detecting Positive Selection in Populations Using Genetic Data 6. polyDFE: Inferring the Distribution of Fitness Effects and Properties of Beneficial Mutations from Polymorphism Data 7. MSMC and MSMC2: The Multiple Sequentially Markovian Coalescent 8. Ancestral Population Genomics with Jocx, a Coalescent Hidden Markov Model 9. Coalescent Simulation with msprime 10. Inference of Ancestral Recombination Graphs Using ARGweaver
Part III. Advances in Population Genomics
11. Population Genomics of Transitions to Selfing in Brassicaceae Model Systems 12. Genomics of Long- and Short-Term Adaptation in Maize and Teosintes 13. Neurospora from Natural Populations: Population Genomics Insights into the Life History of a Model Microbial Eukaryote 14. Population Genomics of Fungal Plant Pathogens and the Analyses of Rapidly Evolving Genome Compartments 15. Population Genomics on the Fly: Recent Advances in Drosophila 16. Genomic Access to the Diversity of Fishes 17. Avian Population Genomics Taking Off: Latest Findings and Future Prospects 18. Population Genomics of the House Mouse and the Brown Rat 19. Population Genomics in the Great Apes
Back Matter
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