gscreen: Finds intervals that match track expression

In misha: Toolkit for Analysis of Genomic Data

Finds intervals that match track expression

Description

Finds all intervals where track expression is 'TRUE'.

Usage

gscreen(
  expr = NULL,
  intervals = NULL,
  iterator = NULL,
  band = NULL,
  intervals.set.out = NULL
)

Arguments

expr	logical track expression
intervals	genomic scope for which the function is applied
iterator	track expression iterator. If 'NULL' iterator is determined implicitly based on track expression.
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 finds all intervals where track expression's value is 'TRUE'.

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 that match track expression.

See Also

gsegment, gextract

Examples

gdb.init_examples()
gscreen("dense_track > 0.2 & sparse_track < 0.4",
    iterator = "dense_track"
)

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