The reference genome named simply "arabidopsis" in Galaxy is a legacy
genome name and may not work with all tools. Assigning the reference
genome name "Arabidopsis_thaliana_TAIR9" instead is the recommended
choice (both are TAIR9).
The next item to change is the format of the chromosome names,
specifically the capitalization. The file you loaded has chromosome
names like "Chr" and in both the "arabidopsis" and
"Arabidopsis_thaliana_TAIR9" genomes on the Galaxy main server, the
chromosome names are like "chr".
Reassigning the database and correcting the capitalization in the input
file may resolve the issue.
Another choice is to load the reference genome you used to generate the
data into your history in fasta format, and use it as a custom genome
If you need help with any of this, please let us know,
On 11/9/11 9:33 AM, wu yijin wrote:
I am new of Galaxy. I want to visualize my short mapping results in the
I uploaded my .wig file which has format as this, (first column is
position, second is the read soverage of that position)
But it comes an error
No such file or directory
Does anyone know how to fix this?
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