De Bruijn graph construction & path compression libraries.
Forked from 10XGenomics/rust-debruijn -- Docs
- 2-bit packed fixed-length (Kmer) and variable-length (DnaString) sequence containers
- Statically compiled code paths for different K values
- Ability to track arbitrary auxiliary data through the DeBruijn graph
- Customizable kmer counting & filtering schemes supporting a variety of use cases
- DeBruijn graph compression
- Minimum-substring partitioning to shard kmers for memory efficient counting and DeBruijn graph compression
- Configurable for stranded and non-stranded input sequence
- Extensive unit test suite
- Original in production use in Supernova, Long Ranger, Cell Ranger, and Cell Ranger VDJ pipelines from 10x Genomics.
- improved memory efficiency
- compact structure for sample labels
- more compact reads containier
- specialized storage for paired reads
- many new summarizing options, including statistical tests and edge coverage
- multithreaded graph constuction and GFA/DOT file writing
- new options for error removal