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Question: Error: Compute quality statistics
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gravatar for luciagg
4.3 years ago by
luciagg • 0
Spain
luciagg • 0 wrote:

Hello,

I was trying to execute : Compute quality statistics on data with the output generated from filterFastQ (first I trimmed, then I filtered, at last I tried to compute quality). Then I get this error:

/bin/sh: 1: fastx_quality_stats: not found

gzip: stdout: Broken pipe

Thanks
error statistics galaxy • 940 views
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modified 4.3 years ago by fubar ♦ 1.1k • written 4.3 years ago by luciagg • 0
1
gravatar for fubar
4.3 years ago by
fubar ♦ 1.1k
Australia
fubar ♦ 1.1k wrote:

Hello,

Sounds like something's broken but in order to figure out what, we need to know which Galaxy instance (eg provide your Galaxy's URL please) 

While we get this sorted out the FastQC tool (under NGS: QC and manipulation on the main Galaxy server at https://usegalaxy.org/) might worth trying - it generates very comprehensive QC statistics and helpful plots from fastq files.
ADD COMMENT • link written 4.3 years ago by fubar ♦ 1.1k
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