*Galaxy September 7, 2012 Distribution & News Brief*
http://wiki.g2.bx.psu.edu/DevNewsBriefs/2012_09_07
/*Highlights:*/
*
*NCBI BLAST+ has moved* from the Galaxy distribution to the Galaxy's
Main Tool Shed.
*
*Tool Shed* *is now running Mercurial version 2.2.3*. Many updates
an
Hello Lance,
See my inline comments.
On Sep 4, 2012, at 3:15 PM, Lance Parsons wrote:
> I've put together a tool wrapper for the htseq-count script that is part of
> the HTSeq python package and uploaded that to the tool shed. However, I have
> discovered that the tool dependancies do not in
Hello everyone,
I am comparing two samples (control and treated) paired end RNA Seq data.
In the cuffdiff output I have noticed that few genes have zero FPKM value
in one sample and other sample has significant FPKM value.
I want to identify uniquely expressed genes identified only in one sample
(
Hi Paul,
Since you are using one config file/one database, you just need to manually
restart the job runner after installing tools (assuming your servers are
configured correctly).
The old way of having two config files, one for the web front ends and one for
the SINGLE job runner is no longer
Hi,
Please follow the instructions on this page
http://wiki.g2.bx.psu.edu/Admin/Tools/Add%20Tool%20Tutorial
Best regards
Akshay
On Sep 7, 2012, at 3:01 PM, kauerb...@comcast.net wrote:
> Hello,
>
> Can anyone tell me how to add a tool to Galaxy, to be shown on the panel on
> the left?
Hello,
Can anyone tell me how to add a tool to Galaxy, to be shown on the panel on the
left? In particular, I'd like to add the 'cuffmerge' tool to the cufflinks (RNA
seq) group under NGS:RNA Analysis. Other cufflinks tools are there
(cufflinks,cuffcompare,cuffdiff), but not cuffmerge.
Hi all,
Just to share some experiences about temporary directories.
- System /tmp is best put on a separate partition, with nosuid and
noexec set. In /etc/fstab for example
UUID=e35e1...d3/tmp ext4 noexec,nosuid,noatime,nodiratime0 0
- /tmp needs to be big, because it is used as t
