Sambamba: fast processing of NGS alignment formats

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

doi:10.1093/bioinformatics/btv098

Sambamba: fast processing of NGS alignment formats

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

^*Corresponding author for this work

Laboratory of Nematology

Research output: Contribution to journal › Article › Academic › peer-review

878 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 language	English
Pages (from-to)	2032-2034
Journal	Bioinformatics
Volume	31
Issue number	12
DOIs	https://doi.org/10.1093/bioinformatics/btv098
Publication status	Published - 2015

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10.1093/bioinformatics/btv098Licence: CC BY

Sambamba v0.5.0
Tarasov, A. (Creator) & Prins, J. C. P. (Creator), Wageningen University & Research, 2014
DOI: 10.5281/zenodo.13200
Dataset

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Sambamba: fast processing of NGS alignment formats

Abstract

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Sambamba v0.5.0

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