Paper Info
Title
MetaCon: unsupervised clustering of metagenomic contigs with probabilistic k-mers statistics and coverage.
Abstract
Sequencing technologies allow the sequencing of microbial communities directly from the environment without prior culturing. Because assembly typically produces only genome fragments, also known as contigs, it is crucial to group them into putative species for further taxonomic profiling and down-streaming functional analysis. Taxonomic analysis of microbial communities requires contig clustering, a process referred to as binning, that is still one of the most challenging tasks when analyzing metagenomic data. The major problems are the lack of taxonomically related genomes in existing reference databases, the uneven abundance ratio of species, sequencing errors, and the limitations due to binning contig of different lengths. In this context we present MetaCon a novel tool for unsupervised metagenomic contig binning based on probabilistic k-mers statistics and coverage. MetaCon uses a signature based on k-mers statistics that accounts for the different probability of appearance of a k-mer in different species, also contigs of different length are clustered in two separate phases. The effectiveness of MetaCon is demonstrated in both simulated and real datasets in comparison with state-of-art binning approaches such as CONCOCT, MaxBin and MetaBAT.
Year
DOI
Venue
2019
10.1186/s12859-019-2904-4
BMC Bioinformatics
Keywords
Field
DocType
Metagenomics, Unsupervised clustering, K-mers statistics
Genome,Biology,Profiling (computer programming),Metagenomics,Contig,Probabilistic logic,Cluster analysis,Statistics,DNA microarray
Journal
Volume
Issue
ISSN
9
suppl
1471-2105
Citations 
PageRank 
References 
0
0.34
0
Authors
2
Name
Order
Citations
PageRank
Jia Qian1102.90
Matteo Comin219120.94