RankAggreg protocols

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RankAggreg specifications

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Unique identifier OMICS_03526
Name RankAggreg
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Version 0.6.5
Stability Stable
Requirements
gtools, xtable, clValid, mclust, R(≥2.12.0), kohonen
Maintained Yes

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Publication for RankAggreg

RankAggreg in pipeline

2012
PMCID: 3351145
PMID: 22262733
DOI: 10.1093/nar/gkr1265

[…] whether more samples are needed to assure firm conclusion) (), rankprod (implement rank product method; http://www.bioconductor.org/packages/release/bioc/html/rankprod.html; version 2.24.20) () and rankaggreg (implements various rank aggregation methods; http://cran.r-project.org/web/packages/rankaggreg/; version 0.4-2) () are available. godiff () (http://fishgenome.org/bioinfo/godiff/index.htm […]

RankAggreg in publications

 (31)
PMCID: 5955877
PMID: 29769563
DOI: 10.1038/s41598-018-25389-6

[…] values for all reference targets (m-value) and to determine the optimal number of reference targets for every experiment (v-value). graphs were created using graphpad prism version 5.04., the rankaggreg package in r (version 3.2.3) was used to perform rank aggregation analysis., the datasets generated during and/or analysed during the current study are available from the corresponding […]

PMCID: 5849727
PMID: 29535408
DOI: 10.1038/s41598-018-22743-6

[…] genes. to reach a consensus on the rankings of optimal reference genes, the results generated by the four algorithms were aggregated by the cross-entropy monte carlo approach using rpackage rankaggreg. based on the aggregated rankings (fig. ), the most and least stable candidate genes under different treatments were almost consistent with the results of ranking orders provided […]

PMCID: 5819770
PMID: 29462166
DOI: 10.1371/journal.pone.0191658

[…] curve and its area under the curve (auc). ranked lists of relative importance of top contributing factors from randomforest and h2o.randomforest were then combined by rank aggregation (r package “rankaggreg”, version 0.5) to assess the association of those factors with hospitalization through the ed., we identified ~3.4 million ed visits between 2007 and 2009. in the mdacc database, […]

PMCID: 5794185
PMID: 29390041
DOI: 10.1371/journal.pone.0192343

[…] either according to the geometric mean of the ranking numbers calculated e.g. by a web-based tool reffinder [, , ] or the consensus reached with a cross-entropy monte carlo algorithm offered by rankaggreg, an r package for weighted rank aggregation [, ]. robledo et al. [] criticized the motion of selecting the best reference gene(s) due to such consensus rankings as having no biological […]

PMCID: 5742808
PMID: 29186820
DOI: 10.3390/cancers9120160

[…] aim to identify linker genes for diverse scopes in cellular physiology. starting from the results of bim gene prioritization for different vocabularies and using them as an input for the r package rankaggreg, a final subset of 28 pivotal genes was derived, representing candidate key-players for ribe. the robustness of our methodology in this step is not solely limited to the gene expression, […]

RankAggreg institution(s)
Department of Bioinformatics and Biostatistics, University of Louisville, Louisville, KY, USA

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