Sequence graphs are a intuitive way to represent the variation in a collection of DNA sequence. Sets of sequences scale from homologous copies of multi-copy chromosomes, to sets of related bacterial strains, to collections of plant cultivars. We develop techniques to create and analyze such graph representations.
Topics we address:
- Sequence and graph alignment of multiple genomes using maximally unique matching
- Pangenome graph construction from assemblies and/or reference based variant calls
- Structural variant aware genome graph construction
- Multi-level graph construction based on syntenic gene anchoring
- Aligning reads to a graph representation of genomes using graph decomposition indexing
- Scalable, interactive visualization of sequence graphs for data exploration purpose