Description Usage Arguments Details Value See Also Examples
Quantifies the extent of overlap between to sets of intervals in terms of basepairs. Groups that are shared between input are used to calculate the statistic for subsets of data.
1  bed_jaccard(x, y)

x 

y 

The Jaccard statistic takes values of [0,1]
and is measured as:
J(x,y) = \frac{\mid x \bigcap y \mid} {\mid x \bigcup y \mid} = \frac{\mid x \bigcap y \mid} {\mid x \mid + \mid y \mid  \mid x \bigcap y \mid}
Interval statistics can be used in combination with
dplyr::group_by()
and dplyr::do()
to calculate
statistics for subsets of data. See vignette('intervalstats')
for
examples.
tibble with the following columns:
len_i
length of the intersection in basepairs
len_u
length of the union in basepairs
jaccard
value of jaccard statistic
n_int
number of intersecting intervals between x
and y
If inputs are grouped, the return value will contain one set of values per group.
http://bedtools.readthedocs.org/en/latest/content/tools/jaccard.html
Other interval statistics: bed_absdist
,
bed_fisher
, bed_projection
,
bed_reldist
1 2 3 4 5 6 7 8 9 10  genome < read_genome(valr_example('hg19.chrom.sizes.gz'))
x < bed_random(genome, seed = 1010486)
y < bed_random(genome, seed = 9203911)
bed_jaccard(x, y)
# calculate jaccard per chromosome
bed_jaccard(dplyr::group_by(x, chrom),
dplyr::group_by(y, chrom))

Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.