Baraa Orabi

TKSM simulates transcriptomic long-read sequencing data by modularly combining steps, enabling customizable and scalable benchmarking of sequencing tools.

Freddie detects and discovers transcriptomic alternative splicing isoforms without relying on existing annotations, outperforming other tools in recall and identifying a novel Androgen Receptor isoform in prostate cancer.

scTagger matches cellular barcodes from long- and short-reads in single-cell RNA-seq experiments, showing improved accuracy and speed over existing methods.