Supported Applications

Octopus

  • Description

    Octopus is a mapping-based variant caller that implements several calling models within a unified haplotype-aware framework. Octopus takes inspiration from particle filtering by constructing a tree of haplotypes and dynamically pruning and extending the tree based on haplotype posterior probabilities in a sequential manner. This allows octopus to implicitly consider all possible haplotypes at a given loci in reasonable time.

  • Installation

    Use the following command to install this title with the CLI client: $ biogrids-cli install octopus Copy to clipboard
  • Primary Citation*

    D. P. Cooke, D. C. Wedge, and G. Lunter. 2018. A unified haplotype-based method for accurate and comprehensive variant calling. biorxiv.


    • *Full citation information available through

  • Default Versions

    Linux 64:  0.5.2b
    OS X INTEL:  0.5.2b

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