to rescue genomes from circular assembly subgraphs, many of which correspond to abundant species and are not recoverable by existing binning methods. Our work stresses on seeking complete representation of metagenome samples, which has become increasingly possible. (2/2)

Abundant species in a metagenome sample are not guaranteed to be easier to assemble. In our @lh3lh3 new preprint ( https://t.co/5BdoEzC28o ), we proposed k-mer based and 16S rRNA based methods to measure metagenome assembly completeness. We also proposed a new algorithm (1/2)

It's been a while but hifiasm-meta from our lab with @ChengChhy @DPortik @lh3lh3 is now online at Nature Methods, readcube link: https://t.co/tEhpAiHDus . We look forward to seeing more Hifi metagenome libraries for method development and biological insights.

We would like to thank @ChengChhy @DPortik for their help and suggestions throughout the course of hifiasm-meta's developement, and @ Wei Fan for sharing the chicken gut microbiome dataset with us. Thank you so much!

The assembly needs no manual intervention or auxilliary data. Sequence divergence between all pairs of the complete circular contigs is >1%, suggesting little redundancy. We are always looking to test on more samples and improve. Consider give it a try:

Our lab @lh3lh3 developed a metagenome assembler, hifiasm-meta ( https://t.co/iEFeLhK3xn), which reconstructs @PacBio Hifi libraries to tens to hundreds of complete circular bacterial genomes. We hope these high-quality contigs to offer a new means to study microbial communities.

We are looking for metagenome HiFi datasets as each metagenome sample is unique. We need to learn more. If you have data and are happy to share, please let @0xfxfxf and me know. Thank you.

Xiaowen Feng @0xfxfxf developed hifiasm-meta, a fork of hifiasm specialized for metagenome assembly with @PacBio HiFi reads. It can produce ~100 circular genomes from one sheep gut sample. Have a try: https://t.co/sMj70D77E5