Hello Irene, Please see: http://wiki.g2.bx.psu.edu/Learn/Datatypes#Learn.2BAC8-Datatypes.Bed The BED data format was created by UCSC: http://genome.ucsc.edu/FAQ/FAQformat.html#format1 The TopHat manual also links to the UCSC specification: http://tophat.cbcb.umd.edu/manual.html (scroll to "TopHat Output") Thanks! Jen Galaxy team On 7/20/12 5:34 AM, i b wrote:

Hi, where can I find an explanation of the columns in the splice junctions output? From 7 to12 they are only numbered

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