RnaSPAdes is a SPAdes-based de novo transcriptome assembler. It was mainly tested on Illumina RNA-Seq data including strand-specific one, but supports IonTorrent RNA reads as well. Since SPAdes 3.14 it also support hybrid assembly from short and long reads, e.g. PacBio Iso-seq or Oxford Nanopore RNA reads. RnaSPAdes is distributed as a part of SPAdes assembler.

rnaSPAdes download

To obtain rnaSPAdes, please download latest SPAdes release from cab.spbu.ru/software/spades/



  1. Antipov D. , Bushmanova E. , Dvorkina T. , Gurevich A. , Kunyavskaya O. , Shlemov A., Lapidus A. , Meleshko D. , Nurk S. , Prjibelski A. , Korobeynikov A. SPAdes Family of Tools for Genome Assembly and Analysis (poster), 2019
  2. Korobeynikov A. Tools for assembly graph analysis via SPAdes toolbox and more (talk), 2019