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MiRSEA
View on CRAN: Click
here
Download and install MiRSEA package within the R console
Install from CRAN:
install.packages("MiRSEA")
Install from Github:
library("remotes")
install_github("cran/MiRSEA")
Install by package version:
library("remotes")
install_version("MiRSEA", "1.1.1")
Attach the package and use:
library("MiRSEA")
Maintained by
Junwei Han
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2015-06-01
Latest Update: 2024-01-24
Description:
The tools for 'MicroRNA Set Enrichment Analysis' can identify risk pathways(or prior gene sets) regulated by microRNA set in the context of microRNA expression data. (1) This package constructs a correlation profile of microRNA and pathways by the hypergeometric statistic test. The gene sets of pathways derived from the three public databases (Kyoto Encyclopedia of Genes and Genomes ('KEGG'); 'Reactome'; 'Biocarta') and the target gene sets of microRNA are provided by four databases('TarBaseV6.0'; 'mir2Disease'; 'miRecords'; 'miRTarBase';). (2) This package can quantify the change of correlation between microRNA for each pathway(or prior gene set) based on a microRNA expression data with cases and controls. (3) This package uses the weighted Kolmogorov-Smirnov statistic to calculate an enrichment score (ES) of a microRNA set that co-regulate to a pathway , which reflects the degree to which a given pathway is associated with the specific phenotype. (4) This package can provide the visualization of the results.
How to cite:
Junwei Han (2015). MiRSEA: 'MicroRNA' Set Enrichment Analysis. R package version 1.1.1, https://cran.r-project.org/web/packages/MiRSEA. Accessed 22 Dec. 2024.
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Other R packages that MiRSEA depends,
imports, suggests or enhances
Complete documentation for MiRSEA
Functions, R codes and Examples using
the MiRSEA R package
Some associated functions: Corrp2miRfile . EnrichmentScore . EnrichmentScore2 . GetExampleData . GetMiRTargetData . GetPathwayData . HeatMapPlot . MiRSEA-internal . MiRSEA-package . MirSEA . MsReport . PlotCorrelation . PlotHeatMap . PlotRunEnrichment . S2N . envData .
Some associated R codes: Corrp2miRfile.R . EnrichmentScore.R . GetExampleData.R . GetMiRTargetData.R . GetPathwayData.R . MirSEA.R . MsReport.R . PlotCorrelation.R . PlotHeatMap.R . PlotRunEnrichment.R . S2N.R . getEnvironmentData.R . Full MiRSEA package functions and examples
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