Bed_to_juncs converts junctions in BED format produced by TopHat to the internal .juncs format for re-use with future runs.
Parent program: tophat
TopHat is a fast tool for splice junction mapping for RNA-Seq reads. It aligns reads to genome using the high-throughput short read aligner Bowtie, and then analyzes the mapping results to identify splice junctions between exons. It can work without a reference annotation and process mammalian-sized genomes.