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JATAC | Filtering duplicate reads from 454 pyrosequencing data

Identifies duplicate reads based on the flowgram. The distance calculation in JATAC is a more robust way of finding duplicates, as it first identifies read pairs with different homopolymer lengths at low distances. This behaviour closely models the 454 sequencing chemistry where substitution errors are less common than indels. JATAC’s improved duplicate identification comes at a computational price, and its speed depends on the number of reads and the degree of duplication

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JATAC classification

JATAC specifications

Unique identifier:
OMICS_01055
Interface:
Command line interface
Biological technology:
Roche
Computer skills:
Advanced
Maintained:
Yes
Software type:
Package/Module
Restrictions to use:
None
Operating system:
Unix/Linux
Stability:
Stable

JATAC distribution

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No versioning.

JATAC support

Maintainer

  • Ketil Malde <>

Credits

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Publications

Institution(s)

Norwegian Marine Data Centre, Institute of Marine Research, Bergen, Norway; Department of Informatics, University of Bergen, Bergen, Norway; Department of Molecular Biotechnology and Functional Genomics, University of Applied Sciences Wildau, Wildau, Germany; Computational Biology Unit, Uni Computing, Bergen, Norway

Funding source(s)

National Program for Research in Functional Genomics in Norway (FUGE) in the Research Council of Norway (RCN grant No. 183640/S10)

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