RNA-SeQC: RNA-seq metrics for quality control and process optimization. - David S. DeLuca; Joshua Z. Levin; Andrey Sivachenko; Tim Fennell; Marc-Danie Nazaire; Chris Williams; Michael Reich; Wendy Winckler; Gad Getz (Bioinform., 2012)

PRADA: pipeline for RNA sequencing data analysis. - Wandaliz Torres-García; Siyuan Zheng; Andrey Sivachenko; Rahulsimham Vegesna; Qianghu Wang; Rong Yao; Michael F. Berger; John N. Weinstein; Gad Getz; Roel G. W. Verhaak (Bioinform., 2014)