Hi Anto,
Thanks so much! I will try.
Best wishes,
Yan
发件人: Anto Praveen Rajkumar Rajamani [mailto:APR@hum-gen.au.dk] 发送时间: Thursday, August 22, 2013 3:57 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,
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,
Anto
_____
From: Yan He [yanhe83@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!
Yan
发件人: Anto Praveen Rajkumar Rajamani [mailto:APR@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,
Anto