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pcadapt (version 1.0)

Principal Component Analysis for Outlier Detection

Description

Methods to detect genetic markers involved in biological adaptation. 'pcadapt' provides statistical tools for outlier detection based on Principal Component Analysis.

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Version

Install

install.packages('pcadapt')

Monthly Downloads

731

Version

1.0

License

GPL (>= 2)

Maintainer

Keurcien Luu

Last Published

September 5th, 2015

Functions in pcadapt (1.0)

getPopColors

Subpopulation colorization
fdrControl

False Discovery Rate Control Plotting
fdrCalc

False Discovery Rate
manhattanPlot

Manhattan Plot
outlier

Analysis of the computed p-values
screePlot

Principal Components Analysis Scree Plot
read4pcadapt

Multi-purpose read function
pval

Principal Components p-values
fdrList

Auxiliary function
plot.pcadapt

pcadapt visualization tool
plot.outlier

Outlier visualization tool
pcadapt-package

Principal Components Analysis for Outliers Detection.
sdevEstimation

Kurtosis-based Standard Deviation Estimation
scoresPlot

Principal Components Analysis Scores Plot
kurtosis

Kurtosis
corpca

Principal Components Analysis
sdevList

Auxiliary function
pcadapt

Principal Components Analysis
pvalqqPlot

p-values Q-Q Plot
neutralDistribution

Neutral Distribution Estimation
read.genotype

Read files for pcadapt