get_pca_window_list: Get the PCA values for sliding window
In jkruppa/acgtPyramid: kmerPyramid: an interactive visualization tool for nucleobase and \textit{k}-mer frequencies

Get the PCA values for sliding window

1	get_pca_window_list(seqs, window = 5)

`seqs`	DNAStringSet of sequences
`window`	Size of the sliding window

Get the PCA values for sliding window

A list per sequence containing the following elements:

pca_plot_list: Includes a list with the first three principal components of the k-mer frequencies and the first three principal components of the edges of the 3D pyramid.
pca_plot_sphere_df: Returns a data frame with information on the frist three principal components and the count number of single windows. Further the plotting radius for the pyramid_3d_window function is returned.

Jochen Kruppa

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data(viralExampleSeqs)

viral_window_list <- get_pca_window_list(viralExampleSeqs, window = 2)

jkruppa/acgtPyramid documentation built on May 19, 2019, 12:45 p.m.

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