R Graphical Manual

Last data update: 2014.03.03

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Classification

Results 1 - 10 of 40 found.
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EBAM-class (Package: siggenes) : Class EBAM

This is a class representation for the Empirical Bayes Analysis of Microarrays (EBAM) proposed by Efron et al. (2001).

● Data Source: BioConductor
● Keywords: classes
● Alias: EBAM, EBAM-class, plot,EBAM,ANY-method, plot,EBAM-method, print,EBAM-method, show,EBAM-method, summary,EBAM-method
● 0 images

FindA0class (Package: siggenes) : Class FindA0

This is a class representation for the specification of the fudge factor in an EBAM analysis as proposed by Efron et al. (2001).

● Data Source: BioConductor
● Keywords: classes
● Alias: FindA0, FindA0-class, plot,FindA0,ANY-method, plot,FindA0-method, print,FindA0-method, show,FindA0-method
● 0 images

SAM-class (Package: siggenes) : Class SAM

This is a class representation for several versions of the SAM (Significance Analysis of Microarrays) procedure proposed by Tusher et al. (2001).

● Data Source: BioConductor
● Keywords: classes
● Alias: SAM, SAM-class, identify,SAM-method, plot,SAM,ANY-method, plot,SAM-method, print,SAM-method, show,SAM-method, summary,SAM-method
● 0 images

chisq.ebam (Package: siggenes) : EBAM Analysis for Categorical Data

Generates the required statistics for an Empirical Bayes Analysis of Microarrays (EBAM) of categorical data such as SNP data.

● Data Source: BioConductor
● Keywords: htest
● Alias: cat.ebam, chisq.ebam
● 0 images

chisq.stat (Package: siggenes) : SAM Analysis for Categorical Data

Generates the required statistics for a Significance Analysis of Microarrays of categorical data such as SNP data.

● Data Source: BioConductor
● Keywords: htest
● Alias: cat.stat, chisq.stat
● 0 images

d.stat (Package: siggenes) : SAM Analysis Using a Modified t-statistic

Computes the required statistics for a Significance Analysis of Microarrays (SAM) using either a (modified) t- or F-statistic.

● Data Source: BioConductor
● Keywords: htest
● Alias: d.stat
● 0 images

delta.plot (Package: siggenes) : Delta Plots

Generates both a plot of Delta vs. the FDR and a plot of Delta vs. the number of identified genes in a SAM analysis.

● Data Source: BioConductor
● Keywords: hplot
● Alias: delta.plot
● 0 images

denspr (Package: siggenes) : Density Estimation

Estimates the density of a vector of observations by a Poisson regression fit to histogram counts.

● Data Source: BioConductor
● Keywords: smooth
● Alias: denspr
● 0 images

ebam (Package: siggenes) : Empirical Bayes Analysis of Microarrays

Performs an Empirical Bayes Analysis of Microarrays (EBAM). It is possible to perform one and two class analyses using either a modified t-statistic or a (standardized) Wilcoxon rank statistic, and a multiclass analysis using a modified F-statistic. Moreover, this function provides a EBAM procedure for categorical data such as SNP data and the possibility to employ an user-written score function.

● Data Source: BioConductor
● Keywords: htest
● Alias: ebam
● 0 images

ebamControl (Package: siggenes) : Further EBAM Arguments

Specifies most of the optional arguments of ebam and find.a0.

● Data Source: BioConductor
● Keywords: utilities
● Alias: ebamControl, find.a0Control
● 0 images