gregorysprenger/seqtk repository overview

# Download test data
wget -nv --no-check-certificate \
  https://github.com/nf-core/test-datasets/raw/mag/test_data/test_minigut_R1.fastq.gz

# Run Seqtk
seqtk fqchk \
  test_minigut_R1.fastq.gz \
  1> stdout.log \
  2> stderr.log

# Extract total bp count
grep "^ALL" stdout.log | awk '{print $2}' > total_bp.txt