splicelogic: differential transcripts to splice events

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Documentation for package ‘splicelogic’ version 1.1.4

• DESCRIPTION file
• User guides, package vignettes and other documentation
• Package NEWS
• Package README

Help Pages

splicelogic-package	splicelogic: differential transcripts to splice events
create_mock_data	Create mock GRanges data for splicing event testing
find_a3ss	Find splice events from annotated exons
find_a5ss	Find splice events from annotated exons
find_all_events	Find splice events from annotated exons
find_alternative_3_prime_splice_sites	Find splice events from annotated exons
find_alternative_5_prime_splice_sites	Find splice events from annotated exons
find_alternative_transcription_end_sites	Find splice events from annotated exons
find_alternative_transcription_start_sites	Find splice events from annotated exons
find_ates	Find splice events from annotated exons
find_atss	Find splice events from annotated exons
find_events	Find splice events from annotated exons
find_ie	Find splice events from annotated exons
find_included_exons	Find splice events from annotated exons
find_mutually_exclusive_exons	Find splice events from annotated exons
find_mxe	Find splice events from annotated exons
find_retained_introns	Find splice events from annotated exons
find_ri	Find splice events from annotated exons
find_se	Find splice events from annotated exons
find_skipped_exons	Find splice events from annotated exons
generate_a3ss	Generate mock splice events in a GRanges object
generate_a5ss	Generate mock splice events in a GRanges object
generate_ates	Generate mock splice events in a GRanges object
generate_atss	Generate mock splice events in a GRanges object
generate_events	Generate mock splice events in a GRanges object
generate_mxe	Generate mock splice events in a GRanges object
generate_ri	Generate mock splice events in a GRanges object
generate_se	Generate mock splice events in a GRanges object
get_seq	Extract sequences for GRanges
prepare_exons	Prepare exon ranges from a TxDb and DTU results table
prepare_exons_by_partition	Prepare exons from two transcript partitions
preprocess	Preprocess input GRanges object for splicing event calculation
splicelogic	splicelogic: differential transcripts to splice events