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pcadapt (version 2.2)

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

821

Version

2.2

License

GPL (>= 2)

Maintainer

Keurcien Luu

Last Published

February 13th, 2016

Functions in pcadapt (2.2)

pvalqqPlot

p-values Q-Q Plot

read.genotype

Read files for pcadapt

computeStats

Test Statistics

plot.pcadapt

pcadapt visualization tool

getPopColors

Subpopulation colorization

pcadapt-package

Principal Component Analysis for Outlier Detection.

neutralDistribution

Neutral Distribution Estimation

pcadapt

Principal Component Analysis for outlier detection

screePlot

Principal Components Analysis Scree Plot

fstCalc

Fst

scoresPlot

Principal Components Analysis Scores Plot

manhattanPlot

Manhattan Plot

read4pcadapt

pcadapt read function

pval

Principal Components p-values

fstGeno

Fst auxiliary function

corpca

Principal Component Analysis based on the correlation matrix