Manta protocols

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description
Manta computational protocol

Manta specifications

Information


Unique identifier OMICS_09180
Name Manta
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A sequence data file.
Input format BAM
Output data Some variant calls.
Output format VCF
Biological technology Illumina
Operating system Unix/Linux, Mac OS
Programming languages C++, Python
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.4.0
Stability Stable
Requirements
GCC or clang, libz
Maintained Yes

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Maintainer


  • person_outline Christopher Saunders <>

Publication for Manta

Manta IN pipelines

 (2)
2017
PMCID: 5253631
PMID: 28098136
DOI: 10.1038/ncomms14121

[…] european nucleotide archive (ena) (accession number prjeb12830, wgs of matched normal and tumour samples of npc patients). identification of somatic snv and sv was conducted by mutect27 and manta31, respectively. to evaluate the sensitivity of somatic sv results, we used only one sv result when different calls share breakpoints within 1,000 base pairs. we predicted somatic copy number […]

2017
PMCID: 5800348
PMID: 29074561
DOI: 10.1136/jmedgenet-2017-104791

[…] of ird. six hundred and five samples were generated using illumina sequencing chemistry as part of the national institute for health research (nihr) bioresource rare diseases project,18 and the manta and canvas software algorithms were used to detect cnvs.24 25 seventy-seven samples were generated using complete genomics sequencing chemistry,26 with cnvs identified using the complete […]

Manta institution(s)
Illumina, Inc, San Diego, CA, USA; Illumina Cambridge Ltd, Little Chesterford, UK

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