Cluster Flow
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Application data |
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| Created by | Ewels PA |
|---|---|
| Principal bioinformatics method(s) | Analysis pipeline |
| Created at | The Babraham Institute, Science for Life Laboratory |
| Maintained? | Yes |
| Programming language(s) | Perl |
| Interface type(s) | Command line |
| Resource type(s) | Workflows"Workflows" is not in the list (Command-line tool, Web application, Desktop application, Script, Suite, Workbench, Database portal, Workflow, Plug-in, Library, ...) of allowed values for the "Resource type" property. |
| Licence | GPLv3 |
| Operating system(s) | Linux |
| Contact: | phil.ewels@scilifelab.se |
Summary: A command-line pipeline tool which uses common cluster managers to run bioinformatics analysis pipelines.
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Description
Cluster Flow is a command-line pipeline tool which uses common cluster managers to run bioinformatics analysis pipelines.
Benefits of using Cluster Flow:
- Routine analyses are very quick to run, for example: cf --genome GRCh37 fastq_bowtie *fq.gz
- Pipelines use identical parameters, standardising analysis and making results more reproducable
- Integrated parallelisation tools help prevent your cluster becoming overloaded
- All commands and output is logged in files for future reference
- Intuitive commands and a comprehensive manual make Cluster Flow easy to use
- Job monitoring tools and E-mail notifications allow you to keep track of your jobs
How Cluster Flow differs from other pipeline tools:
- Very lightweight and flexible
- Pipelines and configurations can easily be generated on a project-specific basis if required
- New modules and pipelines are super easy to write (see video tutorial)
Cluster Flow currently supports GRIDEngine (SGE), LSF and SLURM, plus it should be fairly easy to port to others.
Useful links:
- Cluster Flow Homepage
- Usage / Installation Tutorial
- Advanced Tutorial - How to write your own pipelines and modules
- Download Cluster Flow
- View Source Code
Links
- Cluster Flow Homepage [ edit link ]
- Cluster Flow HOWTO [ edit link ]
- Cluster Flow HOWTO [ edit link ]
- Cluster Flow Source code [ edit link ]
References
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