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Question: Problem running BWA-MEM mapping
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gravatar for brijesh.yta
2.5 years ago by
brijesh.yta • 0
brijesh.yta • 0 wrote:

I am trying to run BWA-MEM mapping in galaxy. I have uploaded FASTQ files using fastqcssanger and hg19 human genome. When I clicked on Map with BWA-MEM option, and tried to choose files from drop down menu, I couldn't find the files. It say "no fastqcssanger database available". But my history shows fastqcssanger files uploaded and in green. Could anyone help me to solve this problem. Thank you

bwa • 1.1k views
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modified 2.5 years ago • written 2.5 years ago by brijesh.yta • 0
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gravatar for Jennifer Hillman Jackson
2.5 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

This datatype is not supported by the tool at http://usegalaxy.org. The input must be fastqsanger.

Perhaps double check the type and correct if Illumina?

If really fastqcssanger, check the Tool Shed for other mapper options for use in a local or cloud Galaxy.

Thanks, Jen, Galaxy team
ADD COMMENT • link written 2.5 years ago by Jennifer Hillman Jackson ♦ 25k
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gravatar for brijesh.yta
2.5 years ago by
brijesh.yta • 0
brijesh.yta • 0 wrote:

Fixed it! Thank you!
ADD COMMENT • link written 2.5 years ago by brijesh.yta • 0
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