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Question: Extract Genomic DNA fasta file names?
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gravatar for jjrin
17 months ago by
jjrin • 10
jjrin • 10 wrote:

Hello,

I ran the Extract Genomic DNA feature with my gtf file and reference genome fasta file. The fasta output has the coordinates but has a "?" in place of the gene name. For example, the first gene entry is ">?_Scaffold100_65415_65755_+". Is there something wrong with my gtf reference file formatting? I would like my gene names (e.g. "MSTRG.1004") to be there instead of the "?". Thank you for the help!
rna-seq extract genomic dna • 540 views
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modified 16 months ago by Jennifer Hillman Jackson ♦ 25k • written 17 months ago by jjrin • 10
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gravatar for Jennifer Hillman Jackson
16 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

I am retesting this tool and will investigate this at the same time. I suspect that the input may not have the required information, in the expected format, but that will be tested. Please follow progress here: https://biostar.usegalaxy.org/p/23896/

Thanks, Jen, Galaxy team
ADD COMMENT • link written 16 months ago by Jennifer Hillman Jackson ♦ 25k
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