Hi all,
Fastq groomer has Solexa or Illumina 1.3+ as an input quality format. I
asked at the sequencing facility about their machine and output and they
said their format was Illumina 1.8+ (the newest). I tried to convert my
fastq file into Sanger by fastq groomer, using Illumina 1.3+ as an input
If Illumina 1.8+ is already using the Sanger FASTQ encoding, the file should
be recognized by downstream applications, like Quality statistics computer,
quality filter etc. However, my file is not visible by those programs and
when I click on it, only uploaded fastq file is displayed, without
Hi Prashant,
Have you set:
use_debug = False
use_interactive = False
In your universe_wsgi.ini file?
Thanks for using Galaxy,
Dan
On Oct 17, 2011, at 6:15 PM, prashant singh wrote:
Hi
We have installed Galaxy on a local machine (Mac pro 2 x 2.4 gHz quad
core Intel Xeon with 32 GB RAM).
Hello all,
I am a new to GALAXY and am trying to create my own workflow with my own
scripts written in PERL and integrating it with few already available in
GALAXY. I tried the basic example given in GALAXYwiki..the program about
counting GC content. I followed all the steps mentioned but when I
Hi Shambhavi,
It sounds like your tool_conf.xml file is malformed. Check that you have
proper quotes and that the tag open and close are all correct, etc. There are
several programs out there that can validate xml files for you, you may wish to
try to validate your xml file with one of those.
Hello,
There is a tool from the FASTX-Toolkit to remove duplicated sequences,
Collapse sequences, but it is designed to work on short reads.
If the common IDs/sequences are the same between the two files, you
could compare them to identify the common and unique entries. The
general path
I have had the chance to try the patch on several datasets and it looks
good :)
I reiterate my suggestion to pull the patch in galaxy-central.
Best,
Florent
On 05/10/11 18:28, Florent Angly wrote:
Hi,
I have found some issue with the way FASTQ read description is handled
by Galaxy
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Hi,
I am having a fastq file for my RNA data analysis in my computer. How
to make it available for RNA seq data analysis using tophat.
Sandy
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