gintervals.align: Align intervals to the closest intervals in another set

In tanaylab/misha.ext: A home to functions that extend the misha package

Align intervals to the closest intervals in another set

Description

Align intervals to the closest intervals in another set

Usage

gintervals.align(intervals, align_intervals, mindist = 0, maxdist = 0)

Arguments

intervals	intervals set to be aligned
align_intervals	intervals set to align to
mindist	minimum distance to consider for alignment
maxdist	maximum distance to consider for alignment

Value

An intervals set with the same number of rows as intervals, where each interval that has a neighbor with distance 0 in align_intervals is replaced with that neighbor. Intervals without a neighbor at distance 0 remain unchanged.

See Also

gintervals.neighbors

Examples

# Create sample intervals
intervals <- data.frame(
    chrom = c("chr1", "chr1", "chr2"),
    start = c(1000, 2000, 1500),
    end = c(1100, 2100, 1600),
    value = c(10, 20, 30)
)
intervals

# Create alignment target intervals
align_intervals <- data.frame(
    chrom = c("chr1", "chr1"),
    start = c(1000, 2050),
    end = c(1100, 2150),
    score = c(5, 6)
)
align_intervals

# Align intervals to align_intervals
aligned <- gintervals.align(intervals, align_intervals)
aligned

tanaylab/misha.ext documentation built on April 5, 2025, 5:10 a.m.