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bioRxiv · 10.1101/800110

Trans-NanoSim characterizes and simulates nanopore RNA-seq data

Hafezqorani, S.·Yang, C.·Nip, K. M.·Warren, R. L.·Birol, I.
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Abstract

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

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Hafezqorani, S., Yang, C., Nip, K. M., Warren, R. L., Birol, I.. 2019-10-10. Trans-NanoSim characterizes and simulates nanopore RNA-seq data. https://doi.org/10.1101/800110

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