Citation

If you use SPAdes in your research, please cite our latest paper.

In case you perform hybrid assembly using PacBio or Nanopore reads, you may also cite Antipov et al., 2015. If you use multiple paired-end and/or mate-pair libraries you may additionally cite papers describing SPAdes repeat resolution algorithms Prjibelski et al., 2014 and Vasilinetc et al., 2015.

If you use other pipelines, please cite the following papers:

• metaSPAdes: Nurk et al., 2017.
• plasmidSPAdes: Antipov et al., 2016.
• metaplasmidSPAdes / plasmidVerify: Antipov et al., 2019
• metaviralSPAdes / viralVerify: Antipov et al., 2020
• rnaSPAdes: Bushmanova et al., 2019.
• biosyntheticSPAdes: Meleshko et al., 2019.
• coronaSPAdes: Meleshko et al., 2022.

You may also include older papers Nurk, Bankevich et al., 2013 or Bankevich, Nurk et al., 2012, especially if you assemble single-cell data.