format_spliceai_thresh: Formats SpliceAI with -T flag output and filter for predicted...

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

Formats SpliceAI with -T flag output and filter for predicted effects

Description

Reformat the data for each annotated effect per row, filters effects to have a probability score not NA and score > 0, and removes gene symbol from data to make non-redundant output.

Usage

format_spliceai_thresh(spliceai_variants)

Arguments

spliceai_variants

tibble with parsed spliceAI mutations from parse_spliceai

Value

A tibble with splicing effects per row

See Also

parse_spliceai_thresh, annotate_mut_effect

Examples

spliceai_file <- system.file("extdata", "spliceai_thresh_output.vcf", package = "splice2neo")
df <- parse_spliceai_thresh(spliceai_file)
format_spliceai_thresh(df)

TRON-Bioinformatics/splice2neo documentation built on July 1, 2024, 7:57 p.m.