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Question: Cannot find files - Bowtie2 or Tophat
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gravatar for yena.oh
13 months ago by
yena.oh • 70
Canada
yena.oh • 70 wrote:

Hello,

I have loaded 16 fastq files - 15 of which were moved from another history, and 1 file which was recently loaded to galaxy through FTP.

I am only able to see the 1 file loaded through ftp when I attempt to run bowtie/tophat. On HISAT2 or fastQC, however, I see all 16 files. Any suggestions?

Yena
fastq tool datatype input fastqsanger • 466 views
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modified 13 months ago by Jennifer Hillman Jackson ♦ 25k • written 13 months ago by yena.oh • 70
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gravatar for Jennifer Hillman Jackson
13 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Change the datatype to be fastqsanger. This is a recent upgrade: to auto-detect if fastq data is in fastqsanger format and assign that more specific type upon upload. Most tools expect fastqsanger and filter out other datatypes where fastq datasets are selected/input.

How-to FAQs here: https://galaxyproject.org/support/#getting-inputs-right-

Hope that helps! Jen, Galaxy team
ADD COMMENT • link written 13 months ago by Jennifer Hillman Jackson ♦ 25k
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