Evolutionary Genomics

Table of Contents

1. Altmetric Badge
   Book Overview
2. Altmetric Badge
   Chapter 1 Introduction to Genome Biology and Diversity
3. Altmetric Badge
   Chapter 2 Probability, Statistics, and Computational Science
4. Altmetric Badge
   Chapter 3 A Not-So-Long Introduction to Computational Molecular Evolution
5. Altmetric Badge
   Chapter 4 Whole-Genome Alignment
6. Altmetric Badge
   Chapter 5 Inferring Orthology and Paralogy
7. Altmetric Badge
   Chapter 6 Transposable Elements: Classification, Identification, and Their Use As a Tool For Comparative Genomics
8. Altmetric Badge
   Chapter 7 Modern Phylogenomics: Building Phylogenetic Trees Using the Multispecies Coalescent Model
9. Altmetric Badge
   Chapter 8 Genome-Wide Comparative Analysis of Phylogenetic Trees: The Prokaryotic Forest of Life
10. Altmetric Badge
    Chapter 9 The Methodology Behind Network Thinking: Graphs to Analyze Microbial Complexity and Evolution
11. Altmetric Badge
    Chapter 10 Bayesian Molecular Clock Dating Using Genome-Scale Datasets
12. Altmetric Badge
    Chapter 11 Genome Evolution in Outcrossing vs. Selfing vs. Asexual Species
13. Altmetric Badge
    Chapter 12 Selection Acting on Genomes
14. Altmetric Badge
    Chapter 13 Looking for Darwin in Genomic Sequences: Validity and Success Depends on the Relationship Between Model and Data
15. Altmetric Badge
    Chapter 14 Evolution of Viral Genomes: Interplay Between Selection, Recombination, and Other Forces
16. Altmetric Badge
    Chapter 15 Evolution of Protein Domain Architectures
17. Altmetric Badge
    Chapter 16 New Insights on the Evolution of Genome Content: Population Dynamics of Transposable Elements in Flies and Humans
18. Altmetric Badge
    Chapter 17 Association Mapping and Disease: Evolutionary Perspectives
19. Altmetric Badge
    Chapter 18 Ancestral Population Genomics
20. Altmetric Badge
    Chapter 19 Introduction to the Analysis of Environmental Sequences: Metagenomics with MEGAN
21. Altmetric Badge
    Chapter 20 Multiple Data Analyses and Statistical Approaches for Analyzing Data from Metagenomic Studies and Clinical Trials
22. Altmetric Badge
    Chapter 21 Systems Genetics for Evolutionary Studies
23. Altmetric Badge
    Chapter 22 Semantic Integration and Enrichment of Heterogeneous Biological Databases
24. Altmetric Badge
    Chapter 23 High-Performance Computing in Bayesian Phylogenetics and Phylodynamics Using BEAGLE
25. Altmetric Badge
    Chapter 24 Scalable Workflows and Reproducible Data Analysis for Genomics
26. Altmetric Badge
    Chapter 25 Sharing Programming Resources Between Bio* Projects