Re: [galaxy-user] which reference genome should I select

Hello, The option is "Use a built-in index" to use the mm9 reference genome database already in Galaxy (most likely what you want to do). Thanks, Jen Galaxy team On 8/14/12 8:31 AM, Du, Jianguang wrote: Dear All, I am going to run Tophat with mouse RNA-seq datasets. When I uploaded the dat

[galaxy-user] which reference genome should I select

Dear All, I am going to run Tophat with mouse RNA-seq datasets. When I uploaded the datasets with URL method, I chose "Mouse July 2007 (NCBI37/mm9) (mm9)" under Genome. So " database: mm9" appears in the brief description of each dataset in history. My question is: when I run Tophat, under "Wi