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  • Description

    calls structural variants (SVs) and indels from mapped paired-end sequencing reads. Manta is optimized for analysis of germline variation in small sets of individuals and somatic variation in tumor/normal sample pairs. It discovers, assembles, and scores large-scale SVs, medium-sized indels and large insertions within a single efficient workflow. The method is designed for rapid analysis on standard compute hardware: NA12878 at 50x genomic coverage is analyzed in less than 20 minutes on a 20 core server, and most WGS tumor/normal analyses can be completed within 2 hours.

  • Usage

    To list all executables provided by Manta, run: $ biogrids-list manta Copy to clipboard
  • Installation

    Use the following command to install this title with the CLI client: $ biogrids-cli install manta Copy to clipboard Available operating systems: Linux 64, OS X INTEL
  • Primary Citation*

    X. Chen, O. Schulz-Trieglaff, R. Shaw, B. Barnes, F. Schlesinger, M. Källberg, A. J. Cox, S. Kruglyak, and C. T. Saunders. 2016. Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications. Bioinformatics. 32(8): 1220-1222.

    • *Full citation information available through