Multiple sequence alignment
- Leveraging protein language models for accurate multiple sequence alignments
- Efficient minimizer orders for large values of k using minimum decycling sets
- Entropy predicts sensitivity of pseudorandom seeds
- Proving sequence aligners can guarantee accuracy in almost O(m log n) time through an average-case analysis of the seed-chain-extend heuristic
- Efficient mapping of accurate long reads in minimizer space with mapquik
- Extremely fast construction and querying of compacted and colored de Bruijn graphs with GGCAT
- Aligning distant sequences to graphs using long seed sketches
- Genomic sketching with multiplicities and locality-sensitive hashing using Dashing 2
