Usage: sga metagenome [OPTION] READS Assemble contigs from the metagenomics data in READS --help display this help and exit -v, --verbose display verbose output -k, --kmer=K use a k-mer size of size K -x, --kmer-threshold=T only use kmers seen at least T times -t, --threads=NUM use NUM computation threads -d, --sample-rate=N use occurrence array sample rate of N in the FM-index. Higher values use significantly less memory at the cost of higher runtime. This value must be a power of 2 (default: 128) -o, --outfile=FILE write contigs to FILE (default: contigs.fa) Report bugs to js18@sanger.ac.uk