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intervals-package {intervals}

Tools for working with points and intervals
Package: 
intervals
Version: 
0.14.0

Description

Tools for working with and comparing sets of points and intervals.

Details

Index:

Intervals-class
Classes "Intervals" and "Intervals_full".
Intervals_virtual-class
Class "Intervals_virtual".
Intervals_virtual_or_numeric-class
Class union "Intervals_virtual_or_numeric".
as.matrix
Coerce endpoints to a matrix.
c
Concatenate different sets of intervals.
close_intervals
Re-represent integer intervals with open or closed endpoints.
closed
Accessor for closed slot: closure vector/matrix.
clusters
Identify clusters in a collection of positions or intervals.
contract
Contract sets.
distance_to_nearest
Compute distance to nearest position in a set of intervals.
empty
Identify empty interval rows.
expand
Expand sets.
interval_complement
Compute the complement of a set of intervals.
interval_difference
Compute set difference.
interval_included
Assess inclusion of one set of intervals with respect to another.
interval_intersection
Compute the intersection of one or more sets of intervals.
interval_overlap
Assess which query intervals overlap which targets.
interval_union
Compute the union of intervals in one or more interval matrices.
is.na
Identify interval rows with NA endpoints.
plot
S3 plotting methods for intervals objects.
reduce
Compactly re-represent the points in a set of intervals.
sgd
Yeast gene model sample data.
size
Compute interval sizes.
split
Split an intervals object according to a factor.
type
Accessor for type slot: Z or R.
which_nearest
Identify nearest member(s) in a set of intervals.

Further information is available in the following vignettes:

intervals_overview
Overview of the intervals package.

Acknowledgments

Thanks to Julien Gagneur, Simon Anders, and Wolfgang Huber for numerous helpful suggestions about the package content and code.

See Also

See the genomeIntervals package in Bioconductor, which extends the functionality of this package.

Author(s)

Richard Bourgon

Documentation reproduced from package intervals, version 0.14.0. License: Artistic-2.0