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RankAggreg specifications


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
gtools, xtable, clValid, mclust, R(≥2.12.0), kohonen
Maintained Yes


No version available


Publication for RankAggreg

RankAggreg citations


Expressed repetitive elements are broadly applicable reference targets for normalization of reverse transcription qPCR data in mice

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 […]


Selection of reference genes for miRNA qRT PCR under abiotic stress in grapevine

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 […]


Oncologic emergencies in a cancer center emergency department and in general emergency departments countywide and nationwide

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, […]


Reference gene selection for molecular studies of dormancy in wild oat (Avena fatua L.) caryopses by RT qPCR method

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 […]


Integrative Bioinformatic Analysis of Transcriptomic Data Identifies Conserved Molecular Pathways Underlying Ionizing Radiation Induced Bystander Effects (RIBE)

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, […]


Transcription of putative tonoplast transporters in response to glyphosate and paraquat stress in Conyza bonariensis and Conyza canadensis and selection of reference genes for qRT PCR

PMCID: 5507266
PMID: 28700644
DOI: 10.1371/journal.pone.0180794

[…] each treatment and species and genes were ranked based on stability. a consensus ranking was calculated using the monte carlo algorithm based on the spearman’s distances across rankings performed by rankaggreg package in r []. the three most stable genes were selected as reference genes to assay the transcript levels of target genes., candidate gene transcript levels were quantified […]

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

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