Hello Janice,
Are you using the public Main Galaxy instance at http://usegalaxy.org?
Would you be able to submit this as a bug report?
Thanks,
Jen
Galaxy team
On 2/10/14 11:07 AM, Janice Patterson wrote:
I am analyzing RNA-seq data and I ran Cufflinks with the genes.gtf as
a reference ann
Hi Tania,
The data is RNA? Did you filter for properly mapped pairs first ('Filter
SAM')? I am guessing not, and that is where the error about single end
data is coming from, and possibly other insert size values that are
skewing the mean.
If you plan on using the Tuxedo pipeline, you might
Hello Sandrine,
The sequence identifiers are a mismatch between the bam file and the
custom reference genome.
https://wiki.galaxyproject.org/Support#Reference_genomes
I'll reply with more detail to your bug report about the same issue.
Best,
Jen
Galaxy team
On 2/10/14 6:09 AM, Sandrine Imbe
Hello Ines,
You have reached the support mailing list for the public Main Galaxy
instance at http://usegalaxy.org. While we can help with many usage
questions, sometimes for specific tools it is best to contact the tool
author and/or lab running the instance hosting the tool. This is one of
t
Dear Jeremy,
thanks for the reply!
Indeed, there's another feature I don't fully understand: I have a bgiWig
file that contains reads of only one chromosome. I expected that Circster
would display this one chromosome as one circle, but apparently Circster
always draws a circle where all possible
> Indeed, there's another feature I don't fully understand: I have a bgiWig
> file that contains reads of only one chromosome. I expected that Circster
> would display this one chromosome as one circle, but apparently Circster
> always draws a circle where all possible chromosomes of a genome ar
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