gintervals.quantiles: Calculates quantiles of a track expression for intervals

In misha: Toolkit for Analysis of Genomic Data

Calculates quantiles of a track expression for intervals

Description

Calculates quantiles of a track expression for intervals.

Usage

gintervals.quantiles(
  expr = NULL,
  percentiles = 0.5,
  intervals = NULL,
  iterator = NULL,
  band = NULL,
  intervals.set.out = NULL
)

Arguments

expr	track expression for which quantiles are calculated
percentiles	an array of percentiles of quantiles in [0, 1] range
intervals	set of intervals
iterator	track expression iterator. If 'NULL' iterator is determined implicitly based on track expressions.
band	track expression band. If 'NULL' no band is used.
intervals.set.out	intervals set name where the function result is optionally outputted

Details

This function calculates quantiles of 'expr' for each interval in 'intervals'.

If 'intervals.set.out' is not 'NULL' the result is saved as an intervals set. Use this parameter if the result size exceeds the limits of the physical memory.

Value

If 'intervals.set.out' is 'NULL' a set of intervals with additional columns representing quantiles for each percentile.

See Also

gquantiles, gbins.quantiles

Examples

gdb.init_examples()
intervs <- gintervals(c(1, 2), 0, 5000)
gintervals.quantiles("dense_track",
    percentiles = c(0.5, 0.3, 0.9), intervs
)

misha documentation built on Sept. 14, 2023, 5:08 p.m.