Andrew Melnyk

This paper clusters SARS-CoV-2 sequences to identify variants and subtypes, showing improved performance over existing methods and detecting rare variants in large datasets.

This paper introduces CliqueSNV, a method to accurately identify minority viral haplotypes from NGS data by reducing sequencing noise, achieving detection at frequencies as low as 0.1%.

This paper introduces a method using k-mer distribution in RNA-seq reads to estimate genetic relatedness between viral samples and infer transmission clusters without requiring full RNA-seq assembly.