Hi Shayne
For the SAM to BED conversion, you can use the tool: "NGS: SAM
Tools"->"Convert SAM to interval"
Regards, Hans
On 06/20/2011 07:10 AM, Shayne Bellingham wrote:
Dear Galaxy Team,
I was recently pointed to your website to analyse my NGS data, my
primary interest is in mapping sma
Hello everyone
In the admin panel > Manage data libraries section I have an issue with
deleting datasets.
When I click on each dataset's triangle menu and ask for deletion,
everything is fine. But whenever I select datasets and ask for deletion
with the drop down menu at the bottom of the pa
Hello Louise-Amelie,
This behavior was corrected in change set 5612:3297ec86d657, which should be
available in the distribution within the next week or so. Sorry for the
inconvenience.
Greg Von Kuster
On Jun 20, 2011, at 11:06 AM, Louise-Amélie Schmitt wrote:
> Hello everyone
>
> In the ad
Ok no problem :)
Thanks a lot
L-A
Le 20/06/2011 17:50, Greg Von Kuster a écrit :
Hello Louise-Amelie,
This behavior was corrected in change set 5612:3297ec86d657, which
should be available in the distribution within the next week or so.
Sorry for the inconvenience.
Greg Von Kuster
On J
Hi John,
I'm finding the exact same error while going through Jeremy's tutorial
in a local instance of galaxy-dist. I was wonder if you found the
solution.
I see cuffcompare wrapper outputs these files:
cc_output.combined.gtf
cc_output.input1.refmap
cc_output.input1.tmap
cc_output.loci
cc_output.
I see there is this changeset:
https://bitbucket.org/galaxy/galaxy-central/changeset/f4b98c453389
As I have cufflinks 1.0.3, I wonder if this is the cause of the error.
Maybe I should move to galaxy-central if I want to use cufflinks. Is
there any clean way to backport a changeset from -central to
Hello Rubina,
I've forwarding your email to the galaxy public mailing list, where the Galaxy
team can further help you with your upload.
Generally speaking, uploading big FASTQ using the web interface is prone to
errors.
The Galaxy team added a new upload method, using FTP, which is more reliab
Hi Carlos,
We're expecting to release a stable distribution this week, but you are
always free to pull changes from the central repository. The suggested
method would be to just pull all changesets up to the one you want, or
up to the tip changeset.
It's not trivial to pull single changesets, yo
Thanks Nate,
For now I downloaded:
https://bitbucket.org/galaxy/galaxy-central/raw/e74e89a4c03a/tools/ngs_rna/cuffcompare_wrapper.py
https://bitbucket.org/galaxy/galaxy-central/raw/d1f2d2e5246a/tools/ngs_rna/cuffcompare_wrapper.xml
I saved to current versions of these files, so I'll make sure to
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