Hi Yan,

I also had problems with NBIC FTP.
NBIC allows only 10 GB space for user.
I made my BAM files in main server (using Tophat2) and then uploaded them to 
NBIC using their download URLs.
It was fast. It took me less than a hour to move 16 BAM files (around 9.5 GB).
You may try this.
Good luck.

Best wishes,

From: Yan He [yanh...@hotmail.com]
Sent: 22 August 2013 09:36
To: Anto Praveen Rajkumar Rajamani; galaxy-user@lists.bx.psu.edu
Subject: 答复: [galaxy-user] Counts of mapped reads for each gene?

Hi Anto,
Thank you very much for your reply! I tried Galaxy/NBIC. However, I had problem 
with uploading my files. I used FTP, because the file I had was larger than 2G, 
but I couldn’t connect to the NBIC FTP. Do you have some idea how to solve the 
problem? Thanks!

发件人: Anto Praveen Rajkumar Rajamani [mailto:a...@hum-gen.au.dk]
发送时间: Thursday, August 22, 2013 3:14 PM
收件人: Yan He; galaxy-user@lists.bx.psu.edu
主题: RE: [galaxy-user] Counts of mapped reads for each gene?

Hi Yan,

You may use the HTseq count wrapper in the http://galaxy.nbic.nl/.
It does a good job and I could employ edgeR on that count matrix.
Good luck.

Best wishes,

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