R Graphical Manual

Last data update: 2014.03.03

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Results 1 - 10 of 31 found.
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ClusterPhenoTest (Package: phenoTest) :

Test the associations between clusters that each sample belongs to (based on gene expression) and each phenotype.

● Data Source: BioConductor
● Keywords:
● Alias: ClusterPhenoTest
● 0 images

barplotSignatures-methods (Package: phenoTest) : Methods for Function barplotSignatures in Package `phenoTest'

Methods for function barplotSignatures in Package ‘phenoTest’. For more information read the function's manual.

● Data Source: BioConductor
● Keywords: methods
● Alias: barplotSignatures,epheno,GeneSet-method, barplotSignatures,epheno,GeneSetCollection-method, barplotSignatures,epheno,character-method, barplotSignatures,epheno,list-method, barplotSignatures-methods
● 0 images

barplotSignifSignatures-methods (Package: phenoTest) : Methods for Function barplotSignifSignatures in Package `phenoTest'

Methods for function barplotSignifSignatures in Package ‘phenoTest’. For more information read the function's manual.

● Data Source: BioConductor
● Keywords: methods
● Alias: barplotSignifSignatures,epheno,GeneSet-method, barplotSignifSignatures,epheno,GeneSetCollection-method, barplotSignifSignatures,epheno,character-method, barplotSignifSignatures,epheno,list-method, barplotSignifSignatures-methods
● 0 images

epheno-class (Package: phenoTest) : Class "epheno"

Object obtained with the ExpressionPhenoTest function. Contains FC, HR and pvals from testing expression values of each gene against phenotypic variables.

● Data Source: BioConductor
● Keywords: classes
● Alias: [,epheno,ANY,ANY-method, approach,epheno-method, dim,epheno-method, epheno-class, getFc,epheno-method, getHr,epheno-method, getMeans,epheno-method, getPostProbs,epheno-method, getPvals,epheno-method, getSignif,epheno-method, getSummaryDif,epheno-method, logFcHr,epheno-method, p.adjust.method,epheno-method, phenoClass,epheno-method, phenoNames,epheno-method, show,epheno-method
● 0 images

epheno2html (Package: phenoTest) :

Creates html files and plots using an epheno object, which stores the association between a list of variables and gene expression.

● Data Source: BioConductor
● Keywords:
● Alias: epheno2html
● 0 images

eset2genelevel (Package: phenoTest) :

Only one probeset per gene will be kept and entrezid will be used as gene identifier. nsFilter from package genefilter is used to select the probeset. The selected probeset is the one with higher interquartilic range.

● Data Source: BioConductor
● Keywords: ~kwd1
● Alias: eset2genelevel
● 0 images

export2CSV-methods (Package: phenoTest) : Methods for Function export2CSV in Package 'phenoTest'

Methods for function export2CSV in Package 'phenoTest'

● Data Source: BioConductor
● Keywords: methods
● Alias: export2CSV,epheno-method, export2CSV-methods
● 0 images

findCopyNumber (Package: phenoTest) :

Given enrichment scores between two groups of samples and the chromosomical positions of those enrichment scores this function finds areas where the enrichemnt is bigger/lower than expected if the positions where assigned at random. Plots of the regions and positions of the enriched regions are provided.

● Data Source: BioConductor
● Keywords: ~kwd1
● Alias: findCopyNumber
● 0 images

genesInArea (Package: phenoTest) :

Combine the output of getEsPositions and findCopyNumber to see which genes are in the enriched areas.

● Data Source: BioConductor
● Keywords: ~kwd1
● Alias: genesInArea
● 0 images

getEsPositions (Package: phenoTest) :

Given an object of class epheno obtain the gene positions on the genome.

● Data Source: BioConductor
● Keywords: ~kwd1
● Alias: getEsPositions
● 0 images