Book contents
- Frontmatter
- Dedication
- Contents
- List of insights
- Preface
- Notation
- Part I Preliminaries
- Part II Fundamentals of Biological Sequence Analysis
- Part III Genome-Scale Index Structures
- Part IV Genome-Scale Algorithms
- 10 Alignment-based genome analysis
- 11 Alignment-free genome analysis and comparison
- 12 Compression of genome collections
- 13 Fragment assembly
- Part V Applications
- References
- Index
10 - Alignment-based genome analysis
from Part IV - Genome-Scale Algorithms
Published online by Cambridge University Press: 28 September 2023
Book contents
- Frontmatter
- Dedication
- Contents
- List of insights
- Preface
- Notation
- Part I Preliminaries
- Part II Fundamentals of Biological Sequence Analysis
- Part III Genome-Scale Index Structures
- Part IV Genome-Scale Algorithms
- 10 Alignment-based genome analysis
- 11 Alignment-free genome analysis and comparison
- 12 Compression of genome collections
- 13 Fragment assembly
- Part V Applications
- References
- Index
Summary
This chapter connects the alignment techniques and space-efficient data structures covered in earlier chapters. It shows how to use BWT indexes for alignining sequencing reads to a reference genome. This powerful read mapping procedure enables variant calling and genotyping of new individuals from a species whose reference genome has already been assembled.
- Type
- Chapter
- Information
- Genome-Scale Algorithm DesignBioinformatics in the Era of High-Throughput Sequencing, pp. 219 - 239Publisher: Cambridge University PressPrint publication year: 2023