COSMOS specifications


Unique identifier OMICS_10226
Software type Framework/Library
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Programming languages Python
License GNU General Public License version 3.0, MIT License
Computer skills Advanced
Version 2.0
Stability Beta
Source code URL
Maintained Yes


No version available



  • person_outline Peter J. Tonellato

Additional information

Publication for COSMOS

COSMOS citations


Scalable and cost effective NGS genotyping in the cloud

BMC Med Genomics
PMCID: 4608296
PMID: 26470712
DOI: 10.1186/s12920-015-0134-9

[…] GenomeKey implemented in COSMOS was deployed on AWS cloud cluster (Table ) to process successively larger sets of whole exome (1,3,10, 25, 50) and whole genome (1, 3, 10, 25) datasets. Exomes and Genomes were split and parall […]


Jflow: a workflow management system for web applications

PMCID: 5859998
PMID: 26454273
DOI: 10.1093/bioinformatics/btv589

[…] nd execution. Unfortunately, such environments come with their own interface, complicating their integration within already existing web tools. Other WMS such as weaver (), Snakemake (), Ruffus () or Cosmos () provide a framework or a domain-specific language to developers wanting to build and run workflows. These software packages offer the flexibility and power of a high-level programming langua […]

COSMOS institution(s)
Center for Biomedical Informatics, Harvard Medical School, Boston, MA, USA; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA; Department of Biology, Mohammed V University-Agal, Rabat, Morocco
COSMOS funding source(s)
Supported by the National Institutes of Health [1R01MH090611-01A1, 1R01LM011566, and 5T15LM007092] and a Fulbright Fellowship.

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