transform_star_sj: Transforms STAR intermediate table into standardized junction...

In TRON-Bioinformatics/splice2neo: Aberrant splice junction analysis with associated mutations

Transforms STAR intermediate table into standardized junction format

Description

Transforms STAR intermediate table into standardized junction format

Usage

transform_star_sj(tib, keep_unstranded = FALSE)

Arguments

tib	STAR *SJ.out.tab as tibble
keep_unstranded	Logical, to keep junctions without strand annotation. If FALSE (default) junctions without strand annotation "*" are filtered out, otherwise they are considered as two separate junctions with "+" and "-" strand.

Value

A tibble in standardized junction format

Examples

path <-  system.file("extdata", "test_star_SJ.out.tab", package = "splice2neo")
star_raw <- splice2neo:::import_star_sj(path)
splice2neo:::transform_star_sj(star_raw)

TRON-Bioinformatics/splice2neo documentation built on Nov. 9, 2024, 5:28 p.m.