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Question: tophat alignment problem
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gravatar for youpingd
3.3 years ago by
youpingd • 0
United States
youpingd • 0 wrote:

I am new to use tophat in Galaxy, it looks the alignment did not work. I have used RNA-seq excise files (brain1 and brain 2..). No matter i use history genome reference (hg19) or built in reference human genome, it did not. I want to know the reason.  

Thanks,

David
tophat • 841 views
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modified 3.3 years ago by Martin Čech ♦♦ 4.9k • written 3.3 years ago by youpingd • 0
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gravatar for Jennifer Hillman Jackson
3.3 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello, Could you explain in more detail what the problem with the tool run is? Did it fail (red dataset) or is it just queued (grey dataset)? Thanks, Jen, Galaxy team

https://wiki.galaxyproject.org/Support#Dataset_status_and_how_jobs_execute
ADD COMMENT • link written 3.3 years ago by Jennifer Hillman Jackson ♦ 25k

Thanks, I have figured out. I would like to ask one more question, usually how fast to load a file such as a RNA -seq file? Thanks, Youping

ADD REPLY • link written 3.3 years ago by youpingd • 0

Loading time depends on the size of the file and the internet connection. Use FTP for best results. If it times out for some reason, just resume the transfer and it will pick up where it left off.

Glad the rest is working out! Jen

ADD REPLY • link written 3.3 years ago by Jennifer Hillman Jackson ♦ 25k
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