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uap: Reproducible and robust HTS data analysis

: Kämpf, Christoph; Specht, Michael; Scholz, Alexander; Puppel, Sven Holger; Doose, Gero; Reiche, Kristin; Schor, Jana; Hackermüller, Jörg

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BMC bioinformatics. Online journal 20 (2019), Art. 644, 9 pp.
ISSN: 1471-2105
Journal Article, Electronic Publication
Fraunhofer IZI ()
sequencing data analysis; work-flow management; reproducible research

A lack of reproducibility has been repeatedly criticized in computational research. High throughput sequencing (HTS) data analysis is a complex multi-step process. For most of the steps a range of bioinformatic tools is available and for most tools manifold parameters need to be set. Due to this complexity, HTS data analysis is particularly prone to reproducibility and consistency issues. We have defined four criteria that in our opinion ensure a minimal degree of reproducible research for HTS data analysis. A series of workflow management systems is available for assisting complex multi-step data analyses. However, to the best of our knowledge, none of the currently available work flow management systems satisfies all four criteria for reproducible HTS analysis.