ORCID Profile
0000-0002-6307-0458
Current Organisations
E O Lawrence Berkeley National Laboratory
,
University of California Merced
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Publisher: Springer Science and Business Media LLC
Date: 04-2022
DOI: 10.1038/S41592-022-01431-4
Abstract: Evaluating metagenomic software is key for optimizing metagenome interpretation and focus of the Initiative for the Critical Assessment of Metagenome Interpretation (CAMI). The CAMI II challenge engaged the community to assess methods on realistic and complex datasets with long- and short-read sequences, created computationally from around 1,700 new and known genomes, as well as 600 new plasmids and viruses. Here we analyze 5,002 results by 76 program versions. Substantial improvements were seen in assembly, some due to long-read data. Related strains still were challenging for assembly and genome recovery through binning, as was assembly quality for the latter. Profilers markedly matured, with taxon profilers and binners excelling at higher bacterial ranks, but underperforming for viruses and Archaea. Clinical pathogen detection results revealed a need to improve reproducibility. Runtime and memory usage analyses identified efficient programs, including top performers with other metrics. The results identify challenges and guide researchers in selecting methods for analyses.
Publisher: Springer Science and Business Media LLC
Date: 02-10-2017
DOI: 10.1038/NMETH.4458
Publisher: Public Library of Science (PLoS)
Date: 15-07-2015
Location: United States of America
No related grants have been discovered for Zhong Wang.