bed_window {valr} | R Documentation |
Identify intervals within a specified distance.
Description
Identify intervals within a specified distance.
Usage
bed_window(x, y, genome, ...)
Arguments
x |
|
y |
|
genome |
|
... |
params for bed_slop and bed_intersect |
Details
input tbls are grouped by chrom
by default, and additional
groups can be added using dplyr::group_by()
. For example,
grouping by strand
will constrain analyses to the same strand. To
compare opposing strands across two tbls, strands on the y
tbl can
first be inverted using flip_strands()
.
See Also
https://bedtools.readthedocs.io/en/latest/content/tools/window.html
Other multiple set operations:
bed_closest()
,
bed_coverage()
,
bed_intersect()
,
bed_map()
,
bed_subtract()
Examples
x <- tibble::tribble(
~chrom, ~start, ~end,
"chr1", 25, 50,
"chr1", 100, 125
)
y <- tibble::tribble(
~chrom, ~start, ~end,
"chr1", 60, 75
)
genome <- tibble::tribble(
~chrom, ~size,
"chr1", 125
)
bed_glyph(bed_window(x, y, genome, both = 15))
x <- tibble::tribble(
~chrom, ~start, ~end,
"chr1", 10, 100,
"chr2", 200, 400,
"chr2", 300, 500,
"chr2", 800, 900
)
y <- tibble::tribble(
~chrom, ~start, ~end,
"chr1", 150, 400,
"chr2", 230, 430,
"chr2", 350, 430
)
genome <- tibble::tribble(
~chrom, ~size,
"chr1", 500,
"chr2", 1000
)
bed_window(x, y, genome, both = 100)
[Package valr version 0.8.1 Index]