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Sambamba: fast processing of NGS alignment formats.
Tarasov, Artem; Vilella, Albert J; Cuppen, Edwin; Nijman, Isaac J; Prins, Pjotr.
Afiliación
  • Tarasov A; Department of Statistical Simulation, St. Petersburg State University, St. Petersburg, Russia, Illumina Cambridge, Cambridge, UK, Hubrecht Institute, Royal Netherlands Academy of Arts and Sciences, Utrecht, The Netherlands, Department of Medical Genetics, Institute for Molecular Medicine, University
  • Vilella AJ; Department of Statistical Simulation, St. Petersburg State University, St. Petersburg, Russia, Illumina Cambridge, Cambridge, UK, Hubrecht Institute, Royal Netherlands Academy of Arts and Sciences, Utrecht, The Netherlands, Department of Medical Genetics, Institute for Molecular Medicine, University
  • Cuppen E; Department of Statistical Simulation, St. Petersburg State University, St. Petersburg, Russia, Illumina Cambridge, Cambridge, UK, Hubrecht Institute, Royal Netherlands Academy of Arts and Sciences, Utrecht, The Netherlands, Department of Medical Genetics, Institute for Molecular Medicine, University
  • Nijman IJ; Department of Statistical Simulation, St. Petersburg State University, St. Petersburg, Russia, Illumina Cambridge, Cambridge, UK, Hubrecht Institute, Royal Netherlands Academy of Arts and Sciences, Utrecht, The Netherlands, Department of Medical Genetics, Institute for Molecular Medicine, University
  • Prins P; Department of Statistical Simulation, St. Petersburg State University, St. Petersburg, Russia, Illumina Cambridge, Cambridge, UK, Hubrecht Institute, Royal Netherlands Academy of Arts and Sciences, Utrecht, The Netherlands, Department of Medical Genetics, Institute for Molecular Medicine, University
Bioinformatics ; 31(12): 2032-4, 2015 Jun 15.
Article en En | MEDLINE | ID: mdl-25697820
UNLABELLED: Sambamba is a high-performance robust tool and library for working with SAM, BAM and CRAM sequence alignment files; the most common file formats for aligned next generation sequencing data. Sambamba is a faster alternative to samtools that exploits multi-core processing and dramatically reduces processing time. Sambamba is being adopted at sequencing centers, not only because of its speed, but also because of additional functionality, including coverage analysis and powerful filtering capability. AVAILABILITY AND IMPLEMENTATION: Sambamba is free and open source software, available under a GPLv2 license. Sambamba can be downloaded and installed from http://www.open-bio.org/wiki/Sambamba.Sambamba v0.5.0 was released with doi:10.5281/zenodo.13200.
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Programas Informáticos / Análisis de Secuencia de ADN / Secuenciación de Nucleótidos de Alto Rendimiento Límite: Humans Idioma: En Revista: Bioinformatics Asunto de la revista: INFORMATICA MEDICA Año: 2015 Tipo del documento: Article
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Programas Informáticos / Análisis de Secuencia de ADN / Secuenciación de Nucleótidos de Alto Rendimiento Límite: Humans Idioma: En Revista: Bioinformatics Asunto de la revista: INFORMATICA MEDICA Año: 2015 Tipo del documento: Article