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Question: TopHat from Galaxy local instance do not recognize available fastq files.
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gravatar for scuoppo
23 months ago by
scuoppo • 0
scuoppo • 0 wrote:

Hi there,

I am probably missing something obvious here. My local Galaxy TopHat does not recognize the uploaded fastq files (just sample files from library). I am able to upload using get Data and visualize the files. However, when i try to run TopHat Galaxy claims there are not fastq files available. The same files work perfectly fine on the public Galaxy server. Any thoughts?

Thanks, Claudio
fastq galaxy • 547 views
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modified 23 months ago by Jennifer Hillman Jackson ♦ 25k • written 23 months ago by scuoppo • 0
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gravatar for Jennifer Hillman Jackson
23 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Try assigning the datatype fastqsanger to the datasets for them to be recognized by the tool form. If you are not sure if this is the proper format, this is how to double confirm or convert: https://wiki.galaxyproject.org/Support#FASTQ_Datatype_QA

Best, Jen, Galaxy team
ADD COMMENT • link written 23 months ago by Jennifer Hillman Jackson ♦ 25k
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