Alexandra Sneddon

ModkitOpt optimizes RNA modification site calling by selecting the best parameters and stoichiometry cutoff for nanopore sequencing data, improving precision and recall across modification types.

RISER enables real-time RNA class enrichment or depletion during direct RNA sequencing, improving detection of low-abundance RNAs by reducing dominant RNA reads.

This paper introduces a language-informed basecalling method for Nanopore direct RNA sequencing, showing that incorporating mRNA sequence biases improves basecalling accuracy.

CHEUI predicts m6A and m5C modifications at single-molecule resolution, revealing co-occurrence of these modifications in mRNAs across cell lines and tissues.