Progressive improvement of gene prediction metrics in 124 human gut metagenomes.

Gene prediction metrics are improved when using an automated kmer size in SOAPdenovo and with assembly revision (correction of base errors, short indels, and chimeric contigs), compared to a fixed kmer size of = 23 in SOAPdenovo and no assembly revision. The Kmer size is estimated as the closest odd number greater than half the average read length for a sample. Numbers reported are in percent improvement of the respective quality metric. The calculated Kmer for each sample is given in Table S8.