Shasta Documentation
- Introduction
- Quick start
- Command line options
- Supported platforms
- Running an assembly
- Configuring an assembly
- Understanding memory requirements
- Understanding memory modes
- Scripting with Python
- Running an assembly in Docker
- Exploring assembly results
- Maximizing assembly performance
- Building from source
- Contributing to Shasta
- Reporting problems or asking questions
- Computational methods
- Challenges
- Read representation
- Markers
- Marker alignments
- Alignment matrix
- Optimal alignments
- Finding overlapping reads (LowHash algorithm)
- Initial assembly steps
- Read graph
- Marker graph
- Assembly graph
- Using Marker graph to assemble sequence
- Selecting assembly paths
- Compatibility across releases
- Acknowledgments