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<code> Usage: sga stats [OPTION] ... READSFILE Print statistics about the read set. Currently this only prints a histogram of the k-mer counts --help display this help and exit -v, --verbose display verbose output -p, --prefix=PREFIX use PREFIX for the names of the index files (default: prefix of the input file) -t, --threads=NUM use NUM threads to compute the overlaps (default: 1) -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) -k, --kmer-size=N The length of the kmer to use. (default: 27) -n, --num-reads=N Only use N reads to compute the statistics -b, --branch-cutoff=N stop the overlap search at N branches. This lowers the compute time but will bias the statistics away from repetitive reads --run-lengths Print the run length distribution of the BWT --kmer-distribution Print the distribution of kmer counts --no-overlap Suppress the overlap-based error statistics (faster if you only want the k-mer distribution) Report bugs to js18@sanger.ac.uk </code>
