Sambamba: fast processing of NGS alignment formats | Zendy

Artem Tarasov | Zendy; Albert J. Vilella | Zendy; Edwin Cuppen | Zendy; Isaäc J. Nijman | Zendy; Pjotr Prins | Zendy

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Sambamba: fast processing of NGS alignment formats

Author(s) -

Artem Tarasov,

Albert J. Vilella,

Edwin Cuppen,

Isaäc J. Nijman,

Pjotr Prins

Publication year - 2015

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btv098

Subject(s) - computer science , mit license , software , file format , license , open source , exploit , open source software , operating system , database , data mining , computer security

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.

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