Issues producing an output file when using fastx quality stats program

Hello,

I am trying to run some files through the fastx statistics program via the command

fastx_quality_stats -Q30 -i 3237-WHJ-0001_S1_L001_R1_001.fastq \ -o 3237-WHJ-0001_S1_L001_R1_001.stats

The quality check works fine but it doesnt produce an output file, just spills the info out in the terminal.

How can I produce an output file for later use?

Appreciate any wisdom!

// Nine

fastx-quality-stats

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updated 3.8 years ago by Ram

• written 11.0 years ago by nlh15 •

1 answer

You should remove the \ from your command. Are you sure the offset is 30?

fastx_quality_stats -Q30 -i 3237-WHJ-0001_S1_L001_R1_001.fastq -o 3237-WHJ-0001_S1_L001_R1_001.stats

• 0 views • link

updated 6.7 years ago by Ram

• written 11.0 years ago by GouthamAtla

Thank you that did it. Doing some experiments on some data but I will most likely go back to the standard Q33

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written 11.0 years ago by nlh15 •

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