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

Minimap2: pairwise alignment for nucleotide sequences

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

Life Sciences, Bioinformatics, Molecular Biology +17

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

Felipe A. Simão, Robert M. Waterhouse, Panagiotis Ioannidis et al. · Bioinformatics · 2015 · 14.5K citations · Full text

Life Sciences, Bioinformatics, Genetics +17

QUAST: quality assessment tool for genome assemblies

Alexey Gurevich, Vladislav Saveliev, Nikolay Vyahhi et al. · Bioinformatics · 2013 · 11.5K citations · Full text

Life Sciences, Bioinformatics, Biology +14

Canu: scalable and accurate long-read assembly via adaptive <i>k</i> -mer weighting and repeat separation

Sergey Koren, Brian P. Walenz, Konstantin Berlin et al. · Genome Research · 2017 · 8.2K citations · Full text

Life Sciences, Bioinformatics, Biology +16

Assembly of long, error-prone reads using repeat graphs

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

Life Sciences, Bioinformatics, Computer Science +13