A review of bioinformatic pipeline frameworks.
review · Level V
Where this comes from
- Record sourced from PubMed, PMID 27013646.
- Also identified by DOI 10.1093/bib/bbw020 and PMC identifier 5429012.
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Abstract
High-throughput bioinformatic analyses increasingly rely on pipeline frameworks to process sequence and metadata. Modern implementations of these frameworks differ on three key dimensions: using an implicit or explicit syntax, using a configuration, convention or class-based design paradigm and offering a command line or workbench interface. Here I survey and compare the design philosophies of several current pipeline frameworks. I provide practical recommendations based on analysis requirements and the user base.
Medical subject headings
- Computational Biology