FYI: samtools + bam file + a bit of perl == to wiggle conversion: https://lists.soe.ucsc.edu/pipermail/genome/2010-December/024318.html ----- Original Message ----- From: "Ying Zhang" <ying.zhang.yz323@yale.edu> To: galaxy-user@bx.psu.edu Sent: Monday, February 21, 2011 12:39:47 PM Subject: [galaxy-user] get wig file after tophat Hi: I am using tophat in galaxy to analyze my paired-end RNA-seq data and find out that after the tophat analysis, we can not get the wig file from it anymore which is used to be able to. Do you have any idea of how to still be able to get the wig file after tophat analysis? Thanks a lot! Best Ying Zhang, M.D., Ph.D. Postdoctoral Associate Department of Genetics, Yale University School of Medicine 300 Cedar Street,S320 New Haven, CT 06519 Tel: (203)737-2616 Fax: (203)737-2286 _______________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/