bed_absdist {valr} | R Documentation |
Compute absolute distances between intervals.
Description
Computes the absolute distance between the midpoint of each x
interval and
the midpoints of each closest y
interval.
Usage
bed_absdist(x, y, genome)
Arguments
x |
|
y |
|
genome |
Details
Absolute distances are scaled by the inter-reference gap for the
chromosome as follows. For Q
query points and R
reference
points on a chromosome, scale the distance for each query point i
to
the closest reference point by the inter-reference gap for each chromosome.
If an x
interval has no matching y
chromosome,
.absdist
is NA
.
Both absolute and scaled distances are reported as .absdist
and
.absdist_scaled
.
Interval statistics can be used in combination with
dplyr::group_by()
and dplyr::do()
to calculate
statistics for subsets of data. See vignette('interval-stats')
for
examples.
Value
ivl_df with .absdist
and .absdist_scaled
columns.
See Also
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1002529
Other interval statistics:
bed_fisher()
,
bed_jaccard()
,
bed_projection()
,
bed_reldist()
Examples
genome <- read_genome(valr_example("hg19.chrom.sizes.gz"))
x <- bed_random(genome, seed = 1010486)
y <- bed_random(genome, seed = 9203911)
bed_absdist(x, y, genome)