Question: Need help with "Tophat2" tool
0
gravatar for plaza
3.7 years ago by
plaza0
plaza0 wrote:

I was trying to repeat one tutorial on RNAseq (RNASeqDGE_ADVNCD_Prep). In the TopHat2 section, I'm trying to align the reads to a built-in genome (saccharomyces cerevisiae sacCer2), but this genome does not appear in the available options. Any idea on what did I make wrong so far?

Thanks in advance!


 

Tool name: Tophat2
Tool version: 0.6
Tool ID: toolshed.g2.bx.psu.edu/repos/devteam/tophat2/tophat2/0.6
ToolShed URL: https://toolshed.g2.bx.psu.edu/view/devteam/tophat2

 

tophat2 • 839 views
ADD COMMENTlink modified 3.7 years ago • written 3.7 years ago by plaza0
0
gravatar for Jennifer Hillman Jackson
3.7 years ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Load the genome from UCSC and then use it as a custom reference genome with tools. Here is how:
http://wiki.galaxyproject.org/Support#Custom_reference_genome

Best, Jen, Galaxy team

ADD COMMENTlink written 3.7 years ago by Jennifer Hillman Jackson25k
0
gravatar for plaza
3.7 years ago by
plaza0
plaza0 wrote:

Thanks Jen!

ADD COMMENTlink written 3.7 years ago by plaza0
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