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Question: Need help with "FASTQ Quality Trimmer" tool
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gravatar for derekseidel
4.0 years ago by
derekseidel • 0
United States
derekseidel • 0 wrote:

When using this tool it fails to recognize my data files for input. They are uploaded as fastq but do not appear in the drop down window for Fastq Quality Trimmer.

 

Tool name: FASTQ Quality Trimmer
Tool version: 1.0.0
Tool ID: toolshed.g2.bx.psu.edu/repos/devteam/fastq_trimmer_by_quality/fastq_quality_trimmer/1.0.0
ToolShed URL: https://toolshed.g2.bx.psu.edu/view/devteam/fastq_trimmer_by_quality

 
fastq inputs dataprep fastq-quality-trimmer • 1.2k views
ADD COMMENT • link •
modified 4.0 years ago by Jennifer Hillman Jackson ♦ 25k • written 4.0 years ago by derekseidel • 0
1
gravatar for y.hoogstrate
4.0 years ago by
y.hoogstrate • 460
Netherlands
y.hoogstrate • 460 wrote:

The "fastq" format is not explicit in the quality encoding.

The solution is that for different quality encodings different fastq extensions are given.

The tool you refer to accepts fastqsanger and fastqcssanger.

You can obtain the right (quality encoded) format by running the Fastq Groomer.
ADD COMMENT • link modified 4.0 years ago • written 4.0 years ago by y.hoogstrate • 460
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