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By Trapnell C., Salzberg S. , Last update 1494698999
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bed_to_juncs description

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.