DesignSignatures specifications

Information


Unique identifier OMICS_11085
Name DesignSignatures
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A FASTA file of unaligned DNA sequences in groups
Input format FASTA
Operating system Unix/Linux, Mac OS, Windows
Programming languages C, R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.16.1
Stability Stable
Requirements
Biostrings, RSQLite, stats, parallel
Maintained No

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Information


Unique identifier OMICS_11085
Name DesignSignatures
Interface Web user interface
Restrictions to use None
Input data A FASTA file of unaligned DNA sequences in groups
Input format FASTA
Computer skills Basic
Stability Stable
Maintained No

Maintainer


This tool is not available anymore.

Publication for DesignSignatures

DesignSignatures in publication

PMCID: 4844671
PMID: 27097658
DOI: 10.1038/ncomms11274

[…] and the supernatant containing dna was used as template for pcr amplification., primers were designed to optimally differentiate an 80 nucleotide region of the rpob sequence of all 18 strains using designsignatures (). the targeted rpob region differed by a minimum of 4 nucleotides between all strain pairs (median of 12 nucleotides different). extracted dna was first amplified with primers […]


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DesignSignatures institution(s)
Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, USA
DesignSignatures funding source(s)
We acknowledge support from the Simons Foundation Award 342039, the National Science Foundation Grant DEB 1457518, and the National Institute of Food and Agriculture, US Department of Agriculture, Hatch project 1006261.

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