Rxivist logo

Cactus, a reference-free multiple genome alignment program, has been shown to be highly accurate, but the existing implementation scales poorly with increasing numbers of genomes, and struggles in regions of highly duplicated sequence. We describe progressive extensions to Cactus that enable reference-free alignment of tens to thousands of large vertebrate genomes while maintaining high alignment quality. We show that Cactus is capable of scaling to hundreds of genomes and beyond by describing results from an alignment of over 600 amniote genomes, which is to our knowledge the largest multiple vertebrate genome alignment yet created. Further, we show improvements in orthology resolution leading to downstream improvements in annotation.

Download data

  • Downloaded 3,897 times
  • Download rankings, all-time:
    • Site-wide: 3,277
    • In genomics: 352
  • Year to date:
    • Site-wide: 9,016
  • Since beginning of last month:
    • Site-wide: 16,945

Altmetric data


Downloads over time

Distribution of downloads per paper, site-wide


PanLingua

News