genomic_corr_absdist: Absolute distance between two sets of genomic regions

Description Usage Arguments Details Value Author(s) References See Also Examples

View source: R/genomic_region_correlation.R

Description

Absolute distance between two sets of genomic regions

Usage

1
genomic_corr_absdist(gr1, gr2, method = mean, ...)

Arguments

gr1

genomic region 1, a GRanges object

gr2

genomic region 2, a GRanges object

method

function in which input is a vector of distance and output is a scalar

...

pass to method

Details

For regions in gr1 and gr2, they are all degenerated as single points which are the middle points of corresponding regions. For each middle point in gr1, it looks for the nearest point in gr2. Assuming the distance vector is d, the final statistic is method(d).

Value

A single correlation value.

Author(s)

Zuguang Gu <z.gu@dkfz.de>

References

Favoriv A, et al. Exploring massive, genome scale datasets with the GenometriCorr package. PLoS Comput Biol. 2012 May; 8(5):e1002529

See Also

genomic_regions_correlation

Examples

1
2
3
gr1 = GRanges(seqnames = "chr1", ranges = IRanges(c(1, 5), c(3, 8)))
gr2 = GRanges(seqnames = "chr1", ranges = IRanges(c(2, 6), c(4, 8)))
genomic_corr_absdist(gr1, gr2)

jokergoo/epik documentation built on Sept. 28, 2019, 9:20 a.m.