Insertion/Deletion Dynamics for Transposable Elements

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Documentation for package ‘TE’ version 0.3-0

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TE-package TE: Insertion/Deletion Dynamics for Transposable Elements
AetLTR LTR retrotransposons in _Aegilops tauschii_
AlyLTR LTR retrotransposons in _Arabidopsis lyrata_
EstDynamics Estimate TE dynamics using mismatch data
EstDynamics2 Estimate TE dynamics using mismatch data
MasterGene Implements the master gene model in Marchani et al (2009)
MatrixModel Implements the matrix model in Promislow et al (1999)
nbLackOfFitKL Calcualte the KL divergence of a negative binomial fit to the mismatch data.
PlotFamilies Plot the age distributions or insertion rates for multiple families.
print.TEfit Print a TEfit or TEfit2 object
print.TEfit2 Print a TEfit or TEfit2 object
SensitivityPlot Generate sensitivity plots
TE TE: Insertion/Deletion Dynamics for Transposable Elements