Package index

Package overview

splicelogic splicelogic-package

splicelogic: differential transcripts to splice events

Input preprocessing

preprocess()

Preprocess input GRanges object for splicing event calculation

prepare_exons()

Prepare exon ranges from a TxDb and DTU results table

prepare_exons_by_partition()

Prepare exons from two transcript partitions

Event detection

find_se() find_ie() find_mxe() find_ri() find_a5ss() find_a3ss() find_all_events()

Find splice events from annotated exons

Sequence extraction

get_seq()

Extract sequences for GRanges

Mock data generation

create_mock_data()

Create mock GRanges data for splicing event testing

generate_se() generate_mxe() generate_ri() generate_a5ss() generate_a3ss()

Generate mock splice events in a GRanges object