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InteractionSet (version 1.0.4)
Base Classes for Storing Genomic Interaction Data
Description
Provides the GInteractions, InteractionSet and ContactMatrix objects and associated methods for storing and manipulating genomic interaction data from Hi-C and ChIA-PET experiments.
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Version
Version
1.0.4
1.0.3
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Version
1.0.4
License
GPL-3
Maintainer
Aaron Lun
Last Published
June 14th, 2016
Functions in InteractionSet (1.0.4)
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ContactMatrix subsetting
ContactMatrix subsetting and combining
Convert classes
Convert between classes
linkOverlaps
Link overlapping regions
Interaction overlaps
Find overlaps between interactions in one or two dimensions
ContactMatrix overlaps
Find overlaps between GRanges and a ContactMatrix
pairs
Extract paired ranges
ContactMatrix sorting
ContactMatrix sorting and ordering
Interaction distances
Get the linear distance for each interaction
GInteractions class
GInteractions class and constructors
Interaction compare
Interaction comparisons
Interaction subsetting
Interaction subsetting and combining
boundingBox
Get the bounding box
ContactMatrix accessors
ContactMatrix accessors
InteractionSet class
InteractionSet class and constructors
Linearize interactions
Linearize 2D interactions into 1D ranges
ContactMatrix class
ContactMatrix class and constructors
GRanges methods
Equivalents of GRanges methods
ContactMatrix distances
Compute linear distances from ContactMatrix objects
Interaction accessors
Interaction accessors