Sambamba: fast processing of NGS alignment formats

A. Tarasov, A.J. Vilella, E. Cuppen, I.J. Nijman, J.C.P. Prins

Research output: Contribution to journalArticleAcademicpeer-review

247 Citations (Scopus)

Abstract

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.
Original languageEnglish
Pages (from-to)2032-2034
JournalBioinformatics
Volume31
Issue number12
DOIs
Publication statusPublished - 2015

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  • Datasets

    Sambamba v0.5.0

    Tarasov, A. (Creator) & Prins, J. C. P. (Creator), Wageningen University & Research, 2014

    Dataset

    Cite this

    Tarasov, A., Vilella, A. J., Cuppen, E., Nijman, I. J., & Prins, J. C. P. (2015). Sambamba: fast processing of NGS alignment formats. Bioinformatics, 31(12), 2032-2034. https://doi.org/10.1093/bioinformatics/btv098