gregorysprenger/spades repository overview

mkdir -p data
cd data

# Download test data
wget -nv \
  --no-check-certificate \
  https://github.com/nf-core/test-datasets/raw/viralrecon/illumina/sispa/SRR11140744_R1.fastq.gz

wget -nv \
  --no-check-certificate \
  https://github.com/nf-core/test-datasets/raw/viralrecon/illumina/sispa/SRR11140744_R2.fastq.gz

spades.py \
  --pe1-1 SRR11140744_R1.fastq.gz \
  --pe1-2 SRR11140744_R2.fastq.gz \
  --memory 2 \
  --phred-offset 33 \
  -o results