python /oak/stanford/groups/akundaje/marinovg/programs/SPAdes-3.13.0-Linux/bin/spades.py --rna --pe1-1 Ammonia_sp._genotype_T6_RNA.ERR5748154.read1.paired.fastq.gz --pe1-2 Ammonia_sp._genotype_T6_RNA.ERR5748154.read2.paired.fastq.gz --pe2-1 Ammonia_sp._genotype_T6_RNA.ERR5748155.read1.paired.fastq.gz --pe2-2 Ammonia_sp._genotype_T6_RNA.ERR5748155.read2.paired.fastq.gz -t 20 -o SPAdes-3.13-RNA-Trimmomatic-Ammonia_sp._genotype_T6_RNA