Dear Galaxy members,
I am new to galaxy and just installed galaxy on aws cloud. I am testing how it
works and have the following question below:
1. I tried to test bowtie2 with the dataset I uploaded, however, the
window for reference genome is very narrow and nothing from pull-down
Dear mailing list,
I am new to Galaxy and am going through the tutorials, starting with Galaxy 101.
Under point 2.5. Recovering exon info and displaying data in genome browsers
in the tutorial, there is the option to display data at UCSC. However, I don't
have this option, although my history
This is the error I am getting while running Tophat. What's causing this? I
have the default hg19 index files.
Error in tophat:
[Tue Dec 18 10:08:33 2012] Beginning TopHat run (v1.3.3)
---
[Tue Dec 18 10:08:33 2012] Preparing output location
And when I tried running tophat alone like this:
tophat -r 20 test_ref reads_1.fq reads_2.fq
I get this error:
[2012-12-19 06:57:07] Beginning TopHat run (v2.0.7)
---
[2012-12-19 06:57:07] Checking for Bowtie
Bowtie version: 2.0.2.0
[2012-12-19
Hi Dannon,
Yes, you are correct! I installed galaxy from scratch on the cloud. I will
check the site you provided and see how it goes.
I also have the preconfigured cloud instance set up recently. However, when I
stopped the instances (master and cluster nodes) from aws, I couldn't get the
On Dec 19, 2012, at 11:09 AM, Sun, Wenping [USA] sun_wenp...@bah.com wrote:
I also have the preconfigured cloud instance set up recently. However, when I
stopped the instances (master and cluster nodes) from aws, I couldn't get the
galaxy web running again (the instance running however the
Hi Camilla,
For small genomes like these, the quickest option is to use the 'custom
reference genome' function with tools. Details about how to use are in
our wiki:
http://wiki.galaxyproject.org/Support#Custom_reference_genome
Hopefully this helps!
Best,
Jen
Galaxy team
On 12/18/12 12:40
Dear galaxy users,
I tried to follow the instruction to see how the workflow worked by using the
one on the support site
Galaxy-Workflow-mt_analysis_0.01_strand-specific_(fastq_double).ga
However, it takes very very long time and remains the following state for
several hours. Is this normal?
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