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Tangram specifications

Information


Unique identifier OMICS_05785
Name Tangram
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Some reads aligned to the genome reference sequence.
Input format BAM
Operating system Unix/Linux
Programming languages C, C++
License MIT License
Computer skills Advanced
Stability Stable
Requirements
g++, zlib, pthread lib
Maintained Yes

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Maintainer


  • person_outline Jiantao Wu <>

Publication for Tangram

Tangram in publications

 (2)
PMCID: 5305044
PMID: 28228978
DOI: 10.1080/2159256X.2017.1280116

[…] for calling te insertions in the first phase of the 1kgp. subsequent phases of the 1kgp included additional refinement of next-generation sequence based te insertion calling methods resulting in the tangram and melt programs, for the second and third phases of the project, respectively. retroseq and mobster are two of the other most widely used programs for sequence based te insertion detection. […]

PMCID: 4479793
PMID: 26161383
DOI: 10.3389/fbioe.2015.00092

[…] be ascribed to rp and sr methods, “the mates of the anchoring reads are then mapped to a custom but configurable library of known active me consensus sequences” (thung et al., )., among wgs tools, tangram (wu et al., ), a tool developed using mosaik (lee et al., ) alignments (though it may use alignments produced by other mappers), next-generation variationhunter (hormozdiari et al., ), tea […]


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Tangram institution(s)
Department of Biology, Boston College, Chestnut Hill, MA, USA; Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, USA; Department of Human Genetics and USTAR Center for Genetic Discovery, University of Utah, Salt Lake City, UT, USA
Tangram funding source(s)
Supported by grants R01HG004719 and U01HG006513 from the National Human Genome Research Institute and by grant RO1GM59290 from the National Institutes of Health.

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