DegePrime specifications

Information


Unique identifier OMICS_20459
Name DegePrime
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Mac OS
Programming languages Perl
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Anders Andersson <>

Publication for DegePrime

DegePrime in publication

PMCID: 3995771
PMID: 24755918
DOI: 10.1371/journal.pone.0095567

[…] their annotation. after first trimming the alignment to only include positions represented by 90% of the sequences (while maintaining information on where nucleotides had been removed), the program degeprime (https://github.com/envgen/degeprime; hugerth et al. submitted) was used to generate 18 bases long degenerate primers at every alignment position, with maximum degeneracy 12. from these, […]


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DegePrime institution(s)
KTH Royal Institute of Technology, Science for Life Laboratory, School of Biotechnology, Division of Gene Technology, Stockholm, Sweden; Karolinska Institute, Department of Microbiology, Tumor and Cell Biology, Science for Life Laboratory, Stockholm, Sweden; Department of Preparedness, Swedish Institute for Communicable Disease Control, Stockholm, Sweden; Department of Microbiology, Tumor and Cell Biology, Karolinska Institutet, Stockholm, Sweden
DegePrime funding source(s)
Supported by the Swedish Research Councils VR (grant 2011-5689), FORMAS (grant 2009-1174), and EC BONUS project BLUEPRINT, partially funded by FORMAS through grants; and EcoChange grant.

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