Metagenome assembly of high-fidelity long reads with hifiasm-meta

The Sequence Alignment/Map format and SAMtools

Heng Li, Alec Wysoker, Tim Fennell et al. · Bioinformatics · 2009 · 67.5K citations · Full text

Life Sciences, Bioinformatics, Genetics +17

Minimap2: pairwise alignment for nucleotide sequences

Heng Li · Bioinformatics · 2018 · 16.8K citations · Full text

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CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

Donovan H. Parks, Michael Imelfort, Connor T. Skennerton et al. · Genome Research · 2015 · 12.8K citations · Full text

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Assembly of long, error-prone reads using repeat graphs

Mikhail Kolmogorov, Jeffrey Yuan, Yu Lin et al. · Nature Biotechnology · 2019 · 6.3K citations

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Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm

Nature Methods · 2021 · 5.5K citations · Full text

Life Sciences, Bioinformatics, Genetics +11