Question: Graduate student learning to do RNAseq analysis
0
gravatar for rthapa
9 weeks ago by
rthapa0
rthapa0 wrote:

Hi, I am trying to do RNAseq analysis using Galaxy. I have tophat files which i used to run the cufflink yesterday. But the cufflink is neither uploading my tophat files nor processing it. I am wondering what to do next. Why galaxy server is being so slow ? Is it under the maintainence, can some body help me ? Thank you.

ADD COMMENTlink written 9 weeks ago by rthapa0

What Galaxy server are you using and how are you uploading files to it?

ADD REPLYlink written 9 weeks ago by Martin Čech ♦♦ 3.9k
1
gravatar for luca.marisaldi
9 weeks ago by
luca.marisaldi30 wrote:

Hello!

Usually if the size of the files you want to upload is large (around 2 GB each) I strongly recommend to you to upload them through FTP!

FileZilla is a good way to achieve that, it's easy to use and rather reliable.

Once fully uploaded your files will appear on the "Choose FTP file" option from the upload tool (upper-left corner on the main page).

ADD COMMENTlink written 9 weeks ago by luca.marisaldi30

Hello rthapa and luca (great question and answer, thank you both!),

Help for FTP is here: https://galaxyproject.org/tutorials/ngs/#using-ftp

If using http://usegalaxy.org, then the server to connect to is usegalaxy.org

If working at another server, and FTP is enabled, the server to connect to is the base URL name for the server.

Cheers, Jen, Galaxy team

ADD REPLYlink modified 9 weeks ago • written 9 weeks ago by Jennifer Hillman Jackson22k
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