Hi Rich,
You could do this or you could switch to this version of the human
genome (is in all of Galaxy's tools, but will not be useable at UCSC):
Human (Homo sapiens) (b37): hg_g1k_v37
Thanks,
Jen
Galaxy team
On 6/6/12 7:30 AM, Richard Linchangco wrote:
Dear Jen,
Thanks again!
Does
Dear Galaxy,
I've been searching the lists for this type of issue and only found
one solution thus far which is the use of a custom reference. It
doesn't make sense in my situation because the reference I used was
from Galaxy itself when I mapped my data. I'm now trying to use GATK
to find SNPs
Hello Mark,
Not all genomes in the database assignment list are pre-index for all
tools. That is the case for this genome. We can consider add this in,
but it would actually be quicker for you to simply load a fasta version
of the genome into your history and use it as a custom reference
Hi all,
We are just beginning to analyze RNA-seq data and hope to make use of the
Galaxy tools. We are not using a commonly studied organism such as human.
Rather, our data are from the bacterium Pseudomonas fluorescens Pf0-1.
The genome for P. fluorescens Pf0-1 appears in the database/build
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