BigDataScript: a scripting language for data pipelines | Zendy

Pablo Cingolani | Zendy; Robert Sladek | Zendy; Mathieu Blanchette | Zendy

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BigDataScript: a scripting language for data pipelines

Author(s) -

Pablo Cingolani,

Robert Sladek,

Mathieu Blanchette

Publication year - 2014

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/btu595

Subject(s) - computer science , pipeline transport , software portability , serialization , scripting language , programming language , debugging , robustness (evolution) , python (programming language) , operating system , biochemistry , chemistry , environmental engineering , engineering , gene

The analysis of large biological datasets often requires complex processing pipelines that run for a long time on large computational infrastructures. We designed and implemented a simple script-like programming language with a clean and minimalist syntax to develop and manage pipeline execution and provide robustness to various types of software and hardware failures as well as portability.

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