Strainy: phasing and assembly of strain haplotypes from long-read metagenome sequencing

Minimap2: pairwise alignment for nucleotide sequences

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

Life Sciences, Bioinformatics, Molecular Biology +17

Twelve years of SAMtools and BCFtools

Petr Danecek, James Bonfield, Jennifer Liddle et al. · GigaScience · 2021 · 15.9K citations · Full text

Life Sciences, Bioinformatics, Biology +10

MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct <i>de Bruijn</i> graph

Dinghua Li, Chi-Man Liu, Ruibang Luo et al. · Bioinformatics · 2015 · 10K citations · Full text

Life Sciences, Bioinformatics, Genome Assembly +11

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