HiCaptuRe: Manipulating and integrating Capture Hi-C data

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Documentation for package ‘HiCaptuRe’ version 0.99.15

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

Help Pages

annotate_interactions	Annotates HiCaptuRe object from load_interactions
digest_genome	Digest genome for a specific restriction enzyme
distance_summary	Computes the number of interactions by distance
export_interactions	Export interactions in the desired output format
getByBaits	Internal functions to access data held in a HiCaptuRe object.
getByBaits-method	Internal functions to access data held in a HiCaptuRe object.
getByRegions	Internal functions to access data held in a HiCaptuRe object.
getByRegions-method	Internal functions to access data held in a HiCaptuRe object.
getParameters	Internal functions to access data held in a HiCaptuRe object.
getParameters-method	Internal functions to access data held in a HiCaptuRe object.
getters	Internal functions to access data held in a HiCaptuRe object.
HiCaptuRe-class	HiCaptuRe Class
interactionsByBaits	Filters HiCaptuRe object by baits
interactionsByRegions	Filters HiCaptuRe object by overlaping regions
intersect_interactions	Computes the intersect between a list of interactions objects
load_interactions	Loads interaction file into GenomicInteractions Object
peakmatrix2list	Creates a list of HiCaptuRe objects based on a peakmatrix
plot_distance_summary	Generate the plot based on distance output