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Unexplored microbial diversity from 2,500 food metagenomes and links with the human microbiome

Niccolò Carlino, Aitor Blanco‐Míguez, Michal Punčochář, Claudia Mengoni, Federica Pinto, Alessia Tatti, Paolo Manghi, Federica Armanini, Michele Avagliano, Coral Barcenilla,

Cell · 2024 · 122 citations · 95 references

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95

Fast gapped-read alignment with Bowtie 2

Ben Langmead, Steven L. Salzberg · Nature Methods · 2012 · 61.1K citations

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SciPy 1.0: fundamental algorithms for scientific computing in Python

Nature Methods · 2020 · 37.9K 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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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

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Statsmodels: Econometric and Statistical Modeling with Python

Skipper Seabold, Josef Perktold · Proceedings of the Python in Science Conferences · 2010 · 6.5K citations · Full text

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