Anniemap: Vector Search for Viral Short Read Alignment

Background: The process of aligning sequencing reads to a reference genome is a foundational step in genomic analysis, underpinning tasks from variant detection to pathogen surveillance.

Background: The process of aligning sequencing reads to a reference genome is a foundational step in genomic analysis, underpinning tasks from variant detection to pathogen surveillance. In viral genomics, however, this problem becomes substantially more challenging: viral…