intervals-package: Tools for working with points and intervals

Description

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

Arguments

Author

Richard Bourgon <bourgon@ebi.ac.uk>

Acknowledgments

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

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.

Description

Arguments

Author

Acknowledgments

Details

See Also