thanks that makes sense! thanks for sharing the link!
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Obtaining Q30/Q60 Values from Fastq Files
Hello,
I've run FASTQC on my FASTQ files and would like to extract the Q30/Q60 (Phred) Quality Scores. Does FASTQC provide this information directly, or do I need to calculate it separately? I'm unsure how to retrieve this information. Any guidance would be greatly appreciated!
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GenoMax
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joe_genome •
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joe_genome •
1 answer
would like to extract the Q30/Q60 (Phred) Quality Scores
and
do I need to calculate it separately? I
As in average (which does not make a lot of sense) for the entire dataset?
Fastq format encodes scores for each base in the record for every sequence in a position that corresponds to the sequenced base. Q60 scores appear to be valid only for PacBio HiFi data otherwise max for Illumina is in the Q40-Q43 range.
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