gintervals.normalize: Normalize intervals to fixed or variable sizes

In misha: Toolkit for Analysis of Genomic Data

Normalize intervals to fixed or variable sizes

Description

This function normalizes intervals by computing their centers and then expanding them to fixed or variable sizes, while ensuring they don't cross chromosome boundaries.

Usage

gintervals.normalize(intervals = NULL, size = NULL, intervals.set.out = NULL)

Arguments

intervals	intervals set
size	target size(s) for normalized intervals. Can be either: A single positive integer: all intervals normalized to this size A numeric vector: each interval normalized to its corresponding size. Vector length must exactly match the number of intervals, OR a single interval can be provided with multiple sizes to create multiple output intervals (one-to-many expansion).
intervals.set.out	intervals set name where the function result is saved. If NULL, the result is returned to the user.

Value

Normalized intervals set with fixed or variable sizes, or NULL if result is saved to intervals.set.out

See Also

gintervals.force_range

Examples

gdb.init_examples()

# Single size (all intervals normalized to 500bp)
intervs <- gintervals(1, c(1000, 5000), c(2000, 6000))
gintervals.normalize(intervs, 500)

# Vector of sizes (each interval gets its own size)
intervs <- gintervals(1, c(1000, 3000, 5000), c(2000, 4000, 6000))
gintervals.normalize(intervs, c(500, 1000, 750))

# One-to-many: single interval with multiple sizes
interv <- gintervals(1, 1000, 2000)
gintervals.normalize(interv, c(500, 1000, 1500))

misha documentation built on Jan. 28, 2026, 1:07 a.m.