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AMBER: Assessment of Metagenome BinnERs

(2018) Fernando Meyer et al.   GigaScience

The reconstruction of 2,631 draft metagenome-assembled genomes from the global oceans

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The SeqAn C++ template library for efficient sequence analysis: A resource for programmers

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1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life

(2017) Supratim Mukherjee et al.   NATURE BIOTECHNOLOGY

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(2017) Alexander Sczyrba et al.   NATURE METHODS

RefSeq: an update on prokaryotic genome annotation and curation

(2017) Daniel H Haft et al.   NUCLEIC ACIDS RESEARCH

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(2017) Dennis A Benson et al.   NUCLEIC ACIDS RESEARCH

Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life

(2017) Donovan H. Parks et al.   Nature Microbiology

Centrifuge: rapid and sensitive classification of metagenomic sequences

(2016) Daehwan Kim et al.   GENOME RESEARCH

Fast and sensitive taxonomic classification for metagenomics with Kaiju

(2016) Peter Menzel et al.   Nature Communications

An evaluation of the accuracy and speed of metagenome analysis tools

(2016) Stinus Lindgreen et al.   Scientific Reports

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(2015) Knut Reinert et al.   Annual Review of Genomics and Human Genetics

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(2015) Michael A. Peabody et al.   BMC BIOINFORMATICS

CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers

(2015) Rachid Ounit et al.   BMC GENOMICS

MetaPhlAn2 for enhanced metagenomic taxonomic profiling

(2015) Duy Tin Truong et al.   NATURE METHODS

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

Kraken: ultrafast metagenomic sequence classification using exact alignments

(2014) Derrick E Wood et al.   GENOME BIOLOGY

The NCBI Taxonomy database

(2011) S. Federhen   NUCLEIC ACIDS RESEARCH