On Nov 11, 2011, at 9:21 AM, Andrew South wrote:
Hello folks
Anyone else having trouble with running Lastz to map?
Jobs are being sent but not running.
It stopped working for me two days ago after working perfectly, I've tried
fiddling with the formats but no joy.
Hi Andy,
It
Colleagues,
I am having trouble running cufflinks with an annotation file on the public
Galaxy. The assembled transcripts gtf file has all the FPKM at 0 although the
gene expression and transcript expression tab files have values for FPKM.
I have seen the SEQanswers threads about the
On Nov 11, 2011, at 10:01 AM, Andrew South wrote:
Thanks Nate, hope it's a quick fix. Best wishes, Andy
Hi Andy,
All backlogged NGS jobs should now be running, new ones will likely queue until
free slots are available. Please let us know if there's further trouble, and
thanks for using
Do we have option of running MA2C peaks in Galaxy or is tehre an option of
analyzing Chip on Chip data from Nimbelgen.
Thanks
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The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public
Hi Chris,
Clearing the incorrect database assignment can be done by clicking on
the pencil icon for the dataset, and in the database pull down menu,
select the list header:
- Additional Species Are Below -
As you mention, chromosome names need to be identical between the
Hi,
When I import a multiz46way maf alignement from UCSC, if is is a whole
chromosome, then when I try to Filter MAF blocks by Species the list of
species does not appear. If I import a small region, it works...
Is it a question of size? Although it seems OK when I look at it, could it
be a
Hi Chris,
MAC OS doesn't come with a compiler, you need to get Xcode from the
Apple store and install to have gcc. This is free.
http://developer.apple.com/xcode
For help beyond that with BWA itself, the tool authors are the best
source for help.
http://sourceforge.net/projects/bio-bwa/
Hi Aurelie,
Would you have time to share a history link containing the two types of
datasets for me? Use Options - Share or Publish, generate the link,
then email it back to me directly. Please note the dataset(s) with the
issue if not obvious (or make a note about it in the info field of the
Hello Shamsher,
The tool group NGS: Peak Calling will be of interest. Each tool has
some basic documentation plus links out to associated publications and
tool author documentation resources.
And a tutorial covering ChIP-seq analysis using MACS is in our Shared
Data - Published Pages -
Hello!
I have extended a service to support asynchronous data depositing
(http://wiki.g2.bx.psu.edu/Admin/Internals/Data%20Sources), but I cannot quite
figure out how to access it from the Galaxy web-site.
Can someone point me to the right documentation for integrating the service
into
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