Question: Need help with "Tophat2" tool - no chicken genome
gravatar for nico
4.3 years ago by
United States
nico10 wrote:


I am new to Galaxy (which is great, thanks!) and I would like to use Tophat2 with chicken data. Unfortunately galgal4 (and other previous chicken genomes) are not in the built-in dropbox - unlike with Tophat 1.5. 
I looked on the forums etc. but it is still no clear to me how I should proceed if I still want to use Tophat2. What is the correct exact procedure to import my genome galgal4 such I could use it in Tophat but also later for some differential expression?

Thank you for your help.



Tool name: Tophat2
Tool version: 0.6
Tool ID:
ToolShed URL:


galgal4 tophat2 chicken • 1.1k views
ADD COMMENTlink modified 4.3 years ago by Martin Čech ♦♦ 4.9k • written 4.3 years ago by nico10
gravatar for Martin Čech
4.3 years ago by
Martin Čech ♦♦ 4.9k
United States
Martin Čech ♦♦ 4.9k wrote:

Please see the wiki including the detailed page about reference genomes.

ADD COMMENTlink written 4.3 years ago by Martin Čech ♦♦ 4.9k
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