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A package for error-correcting DNA barcodes. Hamming allows one run of a massively parallel pyrosequencer to process up to 1544 samples simultaneously. The tagged barcoding strategy can be used to obtain sequences from hundreds of samples in a single sequencing run, and to perform phylogenetic analyses of microbial communities from pyrosequencing data. The combination of error-correcting barcodes and massively parallel sequencing rapidly revolutionizes our understanding of microbial habitats located throughout our biosphere, as well as those associated with our human bodies.

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Standalone hamming forum

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Standalone hamming classification

Standalone hamming specifications

Unique identifier:
OMICS_02117
Interface:
Command line interface
Operating system:
Unix/Linux
Computer skills:
Advanced
Requirements:
Numpy
Software type:
Package/Module
Restrictions to use:
None
Programming languages:
Python
Stability:
Stable
Maintained:
Yes

Standalone hamming distribution

versioning

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No versioning.

Standalone hamming support

Documentation

Credits

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Publications

Institution(s)

Department of Computer Science, University of Colorado, Boulder, CO, USA; Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, CO, USA; Department of Pediatrics, University of Colorado Denver and Health Sciences Center, Children’s Hospital, Aurora, CO, USA; Department of Chemistry and Biochemistry, University of Colorado, Boulder, CO, USA

Funding source(s)

This work is supported by grants from the Cystic Fibrosis Foundation and NIH(U01 HL081335–01, P01DK078669, and the NIH/CU Molecular Biophysics Training Program T32GM065103).

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