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Question: Galaxy Not Showing My Reference Genome In Drop Down For Bowtie
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6.1 years ago by
mailing list • 840
mailing list • 840 wrote:
Hi guys, As shown in the attached screenshot I uploaded a fasta file. And I want to use it as my reference genome for running bow tie but it doesn't appear in the dropdown on the bow tie tool. I'm sure I'm missing something obvious. Thanks, Greg
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modified 6.1 years ago by Jennifer Hillman Jackson ♦ 25k • written 6.1 years ago by mailing list • 840
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6.1 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:
Hi Greg, Nice pic, it helps! My guess is that the datatype is not assigned as "fasta". To do this, click on the pencil icon for the custom reference genome dataset (#1) to bring up the Edit Attributes forms in the center panel. Then click on the "Datatype" tab and change this to be "fasta" and save. Full help in our wiki with Custom genomes starts here: http://wiki.g2.bx.psu.edu/Support#Custom_reference_genome Please let us know if you need more help, Jen Galaxy team -- Jennifer Jackson http://galaxyproject.org
ADD COMMENT • link written 6.1 years ago by Jennifer Hillman Jackson ♦ 25k
Thanks Jen. But it looks like the datatype was already set to fasta. I tried setting it again and saving but it didn't seem to help. Is there anything else I can try? thanks, Greg
ADD REPLY • link written 6.1 years ago by mailing list • 840
Looking at your screenshot, you have "Use a built-in index" selected. If you change this to "Use one from the history", do you see your fasta file listed? -Dannon
ADD REPLY • link written 6.1 years ago by Dannon Baker ♦ 3.7k
Yes that was it! I knew I was missing something obvious. Thanks, Greg
ADD REPLY • link written 6.1 years ago by mailing list • 840
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