Package: RankProd 3.33.0

Francesco Del Carratore

RankProd: Rank Product method for identifying differentially expressed genes with application in meta-analysis

Non-parametric method for identifying differentially expressed (up- or down- regulated) genes based on the estimated percentage of false predictions (pfp). The method can combine data sets from different origins (meta-analysis) to increase the power of the identification.

Authors:Francesco Del Carratore <[email protected]>, Andris Jankevics <[email protected]> Fangxin Hong <[email protected]>, Ben Wittner <[email protected]>, Rainer Breitling <[email protected]>, and Florian Battke <[email protected]>

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RankProd.pdf |RankProd.html✨
RankProd/json (API)

# Install 'RankProd' in R:
install.packages('RankProd', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:
  • Biom - Metabolomics data on spiked apples
  • apples.cl - Metabolomics data on spiked apples
  • apples.data - Metabolomics data on spiked apples
  • apples.data.vsn - Metabolomics data on spiked apples
  • arab - Genomic Response to Brassinosteroid in Arabidopsis
  • arab.cl - Genomic Response to Brassinosteroid in Arabidopsis
  • arab.gnames - Genomic Response to Brassinosteroid in Arabidopsis
  • arab.origin - Genomic Response to Brassinosteroid in Arabidopsis
  • golub - A subset of the Gene expression dataset from Golub et al.
  • golub.cl - A subset of the Gene expression dataset from Golub et al.
  • golub.gnames - A subset of the Gene expression dataset from Golub et al.
  • lym.exp - Subset of the Intensity data for 8 cDNA slides with CLL and DLBL samples from the Alizadeh et al. paper in Nature 2000
  • mz - Metabolomics data on spiked apples
  • rt - Metabolomics data on spiked apples

On BioConductor:RankProd-3.33.0(bioc 3.21)RankProd-3.32.0(bioc 3.20)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

differentialexpressionstatisticalmethodsoftwareresearchfieldmetabolomicslipidomicsproteomicssystemsbiologygeneexpressionmicroarraygenesignaling

6.48 score 6 packages 83 scripts 553 downloads 213 mentions 7 exports 2 dependencies

Last updated 23 days agofrom:11e9e008c5. Checks:OK: 3 NOTE: 4. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 31 2024
R-4.5-winOKOct 31 2024
R-4.5-linuxOKOct 31 2024
R-4.4-winNOTEOct 31 2024
R-4.4-macNOTEOct 31 2024
R-4.3-winNOTEOct 31 2024
R-4.3-macNOTEOct 31 2024

Exports:plotRPRankProductsRPRP.advanceRPadvanceRSadvancetopGene

Dependencies:gmpRmpfr

RankProd Tutorial

Rendered fromRankProd.Rnwusingutils::Sweaveon Oct 31 2024.

Last update: 2016-09-16
Started: 2013-11-01