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Number of citations per year for the bioinformatics software tool WGSQuikr

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WGSQuikr specifications


Unique identifier OMICS_07822
Name WGSQuikr
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages MATLAB
Computer skills Advanced
Stability Stable
Maintained Yes


No version available


  • person_outline David Koslicki

Publication for WGSQuikr

WGSQuikr citations


Marker genes that are less conserved in their sequences are useful for predicting genome wide similarity levels between closely related prokaryotic strains

PMCID: 4853863
PMID: 27138046
DOI: 10.1186/s40168-016-0162-5

[…] covers both the microbial composition and functional composition of the microbiomes of interest. Hence, various tools are developed over the past few years to facilitate analysis of WGS data, such as WGSQuikr [] and MetaPhlAn []. In addition to taking advantage of the full microbiome sequenced from WGS, some approaches resort to a small subset of widely conserved marker genes mined from WGS data, […]


Fast and Sensitive Alignment of Microbial Whole Genome Sequencing Reads to Large Sequence Datasets on a Desktop PC: Application to Metagenomic Datasets and Pathogen Identification

PLoS One
PMCID: 4117525
PMID: 25077800
DOI: 10.1371/journal.pone.0103441

[…] ed of equal amounts of 22 strains representing 22 species. The data presented in show that Taxoner can detect taxa at the strain level, which is in contrast to MetaPhlAn (and other programs, such as WGSQUIKR). The accuracy of MetaPhlAn and Taxoner are comparable in this task, but it has to be mentioned that Taxoner can achieve this accuracy only if one sets a minimum threshold for the number of r […]

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WGSQuikr institution(s)
Mathematics Department, Oregon State University, Corvallis, OR, USA

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