Lu Cheng

segSHAPE improves RNA secondary structure prediction from Nanopore DRS data by enhancing signal alignment and modification rate estimation, achieving higher accuracy than existing methods.

This paper introduces SegPore, a method for improving raw signal segmentation in Nanopore direct RNA sequencing, leading to better RNA modification detection.

The paper introduces SCAPE-APA, an improved version of SCAPE for estimating alternative polyadenylation events from scRNA-seq data, with optimizations for speed and reliability.

KMAP is a method for visualizing DNA sequences by projecting kmers into 2D space, showing it can detect patterns comparable to MEME and find biologically relevant interactions in ChIP-seq and gene editing data.

LonGP is a Gaussian process regression model for longitudinal studies that handles time-varying covariates and non-linear effects, showing performance on simulated and real -omics data.