PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets
Published 2021 View Full Article
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Title
PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets
Authors
Keywords
-
Journal
BMC BIOINFORMATICS
Volume 22, Issue 1, Pages -
Publisher
Springer Science and Business Media LLC
Online
2021-06-27
DOI
10.1186/s12859-021-04270-w
References
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Related references
Note: Only part of the references are listed.- PlasClass improves plasmid sequence classification
- (2020) David Pellow et al. PLoS Computational Biology
- A human gut bacterial genome and culture collection for improved metagenomic analyses
- (2019) Samuel C. Forster et al. NATURE BIOTECHNOLOGY
- Plasmid detection and assembly in genomic and metagenomic datasets
- (2019) Dmitry Antipov et al. GENOME RESEARCH
- PPR-Meta: a tool for identifying phages and plasmids from metagenomic fragments using deep learning
- (2019) Zhencheng Fang et al. GigaScience
- PlasFlow: predicting plasmid sequences in metagenomic data using genome signatures
- (2018) Pawel S Krawczyk et al. NUCLEIC ACIDS RESEARCH
- PlasmidSeeker: identification of known plasmids from bacterial whole genome sequencing reads
- (2018) Märt Roosaare et al. PeerJ
- Optimal classifier for imbalanced data using Matthews Correlation Coefficient metric
- (2017) Sabri Boughorbel et al. PLoS One
- In SilicoDetection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing
- (2014) Alessandra Carattoli et al. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
- Community-wide plasmid gene mobilization and selection
- (2013) Vladimir Sentchilo et al. ISME Journal
- Evolution of genome base composition and genome size in bacteria
- (2012) Hiromi Nishida Frontiers in Microbiology
- IncP-1ε Plasmids are Important Vectors of Antibiotic Resistance Genes in Agricultural Systems: Diversification Driven by Class 1 Integron Gene Cassettes
- (2012) Holger Heuer et al. Frontiers in Microbiology
- Associations Between Multidrug Resistance, Plasmid Content, and Virulence Potential Among Extraintestinal Pathogenic and Commensal Escherichia coli from Humans and Poultry
- (2011) Timothy J. Johnson et al. Foodborne Pathogens and Disease
- cBar: a computer program to distinguish plasmid-derived from chromosome-derived sequence fragments in metagenomics data
- (2010) Fengfeng Zhou et al. BIOINFORMATICS
- Predicting Plasmid Promiscuity Based on Genomic Signature
- (2010) H. Suzuki et al. JOURNAL OF BACTERIOLOGY
- Biopython: freely available Python tools for computational molecular biology and bioinformatics
- (2009) P. J. A. Cock et al. BIOINFORMATICS
- BLAST+: architecture and applications
- (2009) Christiam Camacho et al. BMC BIOINFORMATICS
- The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes
- (2008) F Meyer et al. BMC BIOINFORMATICS
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