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Scoring-and-Unfolding Trimmed Tree Assembler SUTTA

Provides a de novo DNA sequence assembler based on global search-methods in order to contain the complexity of the assembly problem. SUTTA algorithm was developed addressing the following issues: developing better ways to dynamically evaluate and validate layouts, formulating the assembly problem more faithfully, devising superior and accurate algorithms, taming the complexity of the algorithms and finally, a theoretical framework for further studies along with practical tools for future sequencing technologies. Because of the generality and flexibility of the scheme, SUTTA is capable of agnostically adapting to various rapidly evolving technologies. It also allows concurrent assembly and validation of multiple layouts, thus providing a flexible framework that combines short- and long-range information from different technologies. SUTTA's binaries are freely available to non-profit institutions for research and educational purposes.

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SUTTA forum

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SUTTA classification

SUTTA specifications

Software type:
Package/Module
Restrictions to use:
Academic or non-commercial use
Computer skills:
Advanced
Maintained:
No
Interface:
Command line interface
Operating system:
Unix/Linux
Stability:
Stable

SUTTA distribution

versioning

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No versioning.

SUTTA support

Maintainer

This tool is not available anymore.

Credits

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Publications

Institution(s)

Courant Institute of Mathematical Sciences, New York University, New York, NY, USA; NYU School of Medicine, New York, NY, USA

Funding source(s)

This work was supported by the NSF CDI program and Abraxis BioScience, LLC.

Link to literature

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