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Question: Extract Genomic DNA - Unavailable and Unspecified genome build
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gravatar for hzhu04
9 weeks ago by
hzhu04 • 10
hzhu04 • 10 wrote:

Hi, I am trying to input my exon intervals that's in a GFF but it keeps saying unavailable and to update unspecified genome build however when i try to edit attributes the species I am working on is not present.

extract galaxy custom-genome • 90 views
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modified 9 weeks ago by Jennifer Hillman Jackson ♦ 25k • written 9 weeks ago by hzhu04 • 10
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gravatar for Jennifer Hillman Jackson
9 weeks ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

You'll need to upload the fasta of the reference genome the GFF data is based on so it can be used as a "Custom Genome". Then use the Extract tool with your custom genome "from the history". The input GFF won't need a database assigned, but you could go further and create a Custom Build and assign that as the database.

Format and content are both very important. Please review the FAQs below to avoid problems. https://galaxyproject.org/support/#getting-inputs-right. Start with these two and use the others in that same section as needed.

  • Preparing and using a Custom Reference Genome or Build
  • Mismatched Chromosome identifiers (and how to avoid them)

Thanks! Jen, Galaxy team
ADD COMMENT • link written 9 weeks ago by Jennifer Hillman Jackson ♦ 25k
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