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Cluster Flow: A user-friendly bioinformatics workflow tool
KTH, School of Biotechnology (BIO), Gene Technology. KTH, Centres, Science for Life Laboratory, SciLifeLab.
2016 (English)In: F1000 Research, ISSN 0106-3324, E-ISSN 2046-1402, Vol. 5, 2824Article in journal (Refereed) Published
Abstract [en]

Pipeline tools are becoming increasingly important within the field of bioinformatics. Using a pipeline manager to manage and run workflows comprised of multiple tools reduces workload and makes analysis results more reproducible. Existing tools require significant work to install and get running, typically needing pipeline scripts to be written from scratch before running any analysis. We present Cluster Flow, a simple and flexible bioinformatics pipeline tool designed to be quick and easy to install. Cluster Flow comes with 40 modules for common NGS processing steps, ready to work out of the box. Pipelines are assembled using these modules with a simple syntax that can be easily modified as required. Core helper functions automate many common NGS procedures, making running pipelines simple. Cluster Flow is available with an GNU GPLv3 license on GitHub. Documentation, examples and an online demo are available at http://clusterflow.io.

Place, publisher, year, edition, pages
Faculty of 1000 Ltd , 2016. Vol. 5, 2824
Keyword [en]
Bioinformatics, Data analysis, Next-generation sequencing, Parallel computing, Pipeline, Workflow, documentation, human, human experiment, licence, manager, next generation sequencing, running, workload
National Category
Biological Sciences
Identifiers
URN: urn:nbn:se:kth:diva-207519DOI: 10.12688/f1000research.10335.1Scopus ID: 2-s2.0-85015219065OAI: oai:DiVA.org:kth-207519DiVA: diva2:1103947
Note

Export Date: 22 May 2017; Article; Correspondence Address: Käller, M.; Science for Life Laboratory, School of Biotechnology, Division of Gene Technology, Royal Institute of TechnologySweden; email: max.kaller@scilifelab.se. QC 20170531

Available from: 2017-05-31 Created: 2017-05-31 Last updated: 2017-05-31Bibliographically approved

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