RT Journal Article
SR Electronic
T1 Trans-NanoSim characterizes and simulates nanopore RNA-seq data
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 800110
DO 10.1101/800110
A1 Saber Hafezqorani
A1 Chen Yang
A1 Ka Ming Nip
A1 René L Warren
A1 Inanc Birol
YR 2019
UL http://biorxiv.org/content/early/2019/10/10/800110.abstract
AB We introduce Trans-NanoSim, the first tool that simulates reads with technical and transcriptome-specific features learnt from nanopore RNA-seq data. Through benchmarking on sets of nanopore reads from human and mouse reference transcriptomes, we show the robustness of Trans-NanoSim in capturing the characteristics of nanopore cDNA and direct RNA reads. As a cost-effective alternative to sequencing real transcriptomes, Trans-NanoSim would facilitate the rapid development of analytical tools for nanopore RNA-seq data. Trans-NanoSim is freely accessible at https://github.com/bcgsc/NanoSim