Hi, I am Crystal. I tried to visualize Tophat output (BAM and BED files) together with UCSC Zebrafish refgene track chr21.bam (downloaded from http://genome.ucsc.edu/cgi-bin/hgTables) using Visualization in Galaxy Test but nothing appeared. The workflow I did was: 1) selecting Visualization > New Track Browser 2) In New Track Browser, I select Zebrafish Jul. 2010 (Zv9/danRer7) (danRer7) for Reference genome build (dbkey) 3) Click continue 4) Option > Add tracks 5) Select 3 datasets (BAM, BED from tophat output and refgene track file) > insert 6) Select chromosome 21 Nothing can be seen. Jeremy, can I get advice on this? Thanks. Best regards, Crystal
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