Christina Boucher

GIBD detects IBD segments in pangenome graphs and annotates them with structural variants, outperforming existing methods in accuracy and speed.

The paper introduces GBZ-base and GAF-base, indexed pangenome file formats for efficient subgraph and alignment extraction.

This paper reviews computational methods for predicting antimicrobial resistance in Mycobacterium tuberculosis using genomic data, comparing catalog-based and machine learning approaches.

The paper uses long-read sequencing to identify pathogenic variants in autism cases, finding three pathogenic mutations and nine candidate structural variants missed by short-read sequencing.

Cliffy improves 16S rRNA classification by reducing index size and increasing accuracy compared to Kraken2 and Bracken.

SPUMONI 2 improves pangenome classification by using a compressed index of minimizer digests, achieving faster speed, lower memory use, and better performance for short and long reads.

The paper introduces a data structure that efficiently represents colored de Bruijn graphs, reducing memory usage for genetic variant detection and genotyping in population-level data.