Cluster Flow: A user-friendly bioinformatics workflow tool [version 1; referees: 3 approved]
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, t...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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F1000 Research Ltd
2016-12-01
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| Series: | F1000Research |
| Subjects: | |
| Online Access: | https://f1000research.com/articles/5-2824/v1 |
| _version_ | 1818327976459108352 |
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| author | Philip Ewels Felix Krueger Max Käller Simon Andrews |
| author_facet | Philip Ewels Felix Krueger Max Käller Simon Andrews |
| author_sort | Philip Ewels |
| collection | DOAJ |
| description | 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. |
| first_indexed | 2024-12-13T12:24:49Z |
| format | Article |
| id | doaj.art-0413603316944b9aaace5e04da7a4cd2 |
| institution | Directory Open Access Journal |
| issn | 2046-1402 |
| language | English |
| last_indexed | 2024-12-13T12:24:49Z |
| publishDate | 2016-12-01 |
| publisher | F1000 Research Ltd |
| record_format | Article |
| series | F1000Research |
| spelling | doaj.art-0413603316944b9aaace5e04da7a4cd22022-12-21T23:46:24ZengF1000 Research LtdF1000Research2046-14022016-12-01510.12688/f1000research.10335.111134Cluster Flow: A user-friendly bioinformatics workflow tool [version 1; referees: 3 approved]Philip Ewels0Felix Krueger1Max Käller2Simon Andrews3Department of Biochemistry and Biophysics, Science for Life Laboratory, Stockholm University, Stockholm, SwedenBioinformatics Group, The Babraham Institute, Cambridge, UKScience for Life Laboratory, School of Biotechnology, Division of Gene Technology, Royal Institute of Technology, Stockholm, SwedenBioinformatics Group, The Babraham Institute, Cambridge, UKPipeline 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.https://f1000research.com/articles/5-2824/v1BioinformaticsGenomics |
| spellingShingle | Philip Ewels Felix Krueger Max Käller Simon Andrews Cluster Flow: A user-friendly bioinformatics workflow tool [version 1; referees: 3 approved] F1000Research Bioinformatics Genomics |
| title | Cluster Flow: A user-friendly bioinformatics workflow tool [version 1; referees: 3 approved] |
| title_full | Cluster Flow: A user-friendly bioinformatics workflow tool [version 1; referees: 3 approved] |
| title_fullStr | Cluster Flow: A user-friendly bioinformatics workflow tool [version 1; referees: 3 approved] |
| title_full_unstemmed | Cluster Flow: A user-friendly bioinformatics workflow tool [version 1; referees: 3 approved] |
| title_short | Cluster Flow: A user-friendly bioinformatics workflow tool [version 1; referees: 3 approved] |
| title_sort | cluster flow a user friendly bioinformatics workflow tool version 1 referees 3 approved |
| topic | Bioinformatics Genomics |
| url | https://f1000research.com/articles/5-2824/v1 |
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