Hello Zheng, In the Galaxy UI, the tool "NGS: QC and manipulation -> Convert SOLiD output to fastq" is to be used before running "Compute quality statistics for SOLiD data". You could also run this conversion tool command line, if that is how you are running fastx_quality_stats. Hopefully this helps, Best, Jen Galaxy team On 7/8/11 8:37 AM, Zheng, Xin (NIH) [C] wrote:

Hi all,

I noticed Galaxy could parse qual file and output kinds of stats, which is said to be based on fastx toolkit. Yet fastx_quality_stats in fastx toolkit doesn’t work on qual file of solid. Anyone has idea about the trick? Thanks.

Xin Zheng

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