Analysis of Transposable Elements

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Documentation for package ‘atena’ version 1.4.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

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atena-package	atena: analysis of transposable elements in R and Bioconductor
annotaTEs	Get RepeatMasker UCSC annotations
atena	atena: analysis of transposable elements in R and Bioconductor
atenaParam	atena parameter class
atenaParam-class	atena parameter class
ERVmapParam	ERVmap parameter class
ERVmapParam-class	ERVmap parameter class
features	Atena parameter class
features-method	Atena parameter class
ovIntersectionStrict	Pre-defined overlapping mode functions
ovUnion	Pre-defined overlapping mode functions
path-method	Atena parameter class
qtex	Quantify transposable element expression
qtex-method	Quantify transposable element expression
QuantifyParam-class	Atena parameter class
rmskbasicparser	Parser of RepeatMasker annotations
rmskidentity	Identity function for parsefun
show-method	ERVmap parameter class
show-method	TEtranscripts parameter class
show-method	Telescope parameter class
show-method	atena parameter class
TelescopeParam	Telescope parameter class
TelescopeParam-class	Telescope parameter class
TEtranscriptsParam	TEtranscripts parameter class
TEtranscriptsParam-class	TEtranscripts parameter class