CAMELLIA: an alignment-free pipeline integrating k-mer feature selection and supervised classification for genomic sequence subtyping
Tatiana Mari Saita, Matheus Henrique Pimenta-Zanon, Artur Trancoso Lopo de Queiroz, Glaucia Maria Bressan, Fabricio Martins Lopes · 2026
Read CAMELLIA: an alignment-free pipeline integrating k-mer feature selection and supervised classification for genomic sequence subtyping by Tatiana Mari Saita, Matheus Henrique Pimenta-Zanon, Artur Trancoso Lopo de Queiroz, Glaucia Maria Bressan, Fabricio Martins Lopes (2026) in the Tower of Babel, a free online library of public-domain works preserved in clean, searchable text. No sign-up. The full text is served as a plain-text file at a predictable URL, where text is present: https://antarctic-labs.com/tower-of-babel/pmc-13678207.txt.
Description
Tatiana Mari Saita and four co-authors present a pipeline that sorts genome sequences without aligning them in a 2026 paper. Alignment methods slow down on huge data sets and can miss variation inside a species. Their tool, CAMELLIA, turns sequences into graphs, extracts structural patterns, and feeds them to explainable classifiers.
A feature-selection step makes sure small subgroups inside a class are not drowned out by the majority. In an HIV test case, the pipeline sorted sequences into eight subtypes accurately and faster than two alignment tools, matched one rival method, and beat two standard subtyping tools. It also recovered patterns beyond the labels. The authors pitch the method as a scalable, interpretable lens for sequence classification.
Catalog record
| CREATOR | Tatiana Mari Saita, Matheus Henrique Pimenta-Zanon, Artur Trancoso Lopo de Queiroz, Glaucia Maria Bressan, Fabricio Martins Lopes |
|---|---|
| YEAR | 2026 |
| COLLECTION | PAPERS |
| FORMAT | TXT |
| FILE SIZE | 73 KB |
| VERSION | 1.0 |
| LICENSE | CC BY 4.0 |
| RIGHTS | CC BY |
| SOURCE | Europe PMC |