Convert fastq to fasta

Seqtk tools

# Convert FASTQ to FASTA

seqtk seq -a IN.fastq > OUT.fasta

# Convert FASTQ to FASTA and set bases of quality lower than 20 to N

seqtk seq -aQ64 -q20 -n N IN.fastq > OUT.fasta

# Download Seqtk

https://github.com/lh3/seqtk

See also

awk, sed, perl one-liners