--annotation ${reference_gtf_file} \ | --annotation ${reference_gtf_file} \ | ||||
--bams alignment.txt \ | --bams alignment.txt \ | ||||
--parallel $nt \ | --parallel $nt \ | ||||
--confidence 2 \ | |||||
--readlen 150 \ | |||||
--event-types ${event_types} | --event-types ${event_types} | ||||