With the arrival of telomere-to-telomere (T2T) assemblies of the human genome comes the
computational challenge of efficiently and accurately constructing multiple genome …

Virus discovery has been fueled by new technologies ever since the first viruses were
discovered at the end of the 19th century. Starting with mechanical devices that provided …

Abstract Ensembl Genomes (https://www. ensemblgenomes. org) provides access to non-
vertebrate genomes and analysis complementing vertebrate resources developed by the …

DNA sequencing data continue to progress toward longer reads with increasingly lower
sequencing error rates. Here, we define an algorithmic approach, mdBG, that makes use of …

Since 2016, Yemen has been experiencing the largest cholera outbreak in modern history.
Multidrug resistance (MDR) emerged among Vibrio cholerae isolates from cholera patients …

Motivation Huge datasets containing whole-genome sequences of bacterial strains are now
commonplace and represent a rich and important resource for modern genomic …

Compacted de Bruijn graphs are one of the most fundamental data structures in
computational genomics. Colored compacted de Bruijn graphs are a variant built on a …

The problem of sequence identification or matching—determining the subset of reference
sequences from a given collection that are likely to contain a short, queried nucleotide …

The de Bruijn graph is a key data structure in modern computational genomics, and
construction of its compacted variant resides upstream of many genomic analyses. As the …

Bacterial genomes differ in both gene content and sequence mutations, which underlie
extensive phenotypic diversity, including variation in susceptibility to antimicrobials or …