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Old 06-10-2010, 12:06 PM   #2
Bio.X2Y
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Location: Europe

Join Date: Apr 2010
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You could use awk to create a simple fasta file from your fastq, e.g.

awk 'NR % 4 == 1 {print ">" $0 } NR % 4 == 2 {print $0}' my.fastq > my.fasta

However, I don't think it makes any sense to create a fasta file "containing the quality scores". Fasta files are used to represent sequences.
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