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Mash: fast genome and metagenome distance estimation using MinHash
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Scalable metagenomic taxonomy classification using a reference genome database
Sasha K. Ames et al.
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Associating microbiome composition with environmental covariates using generalized UniFrac distances
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Alice Carolyn McHardy et al.
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Catherine A. Lozupone et al.
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UniFrac: a new phylogenetic method for comparing microbial communities
C Lozupone et al.
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C Chapus et al.
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Novel phylogenetic studies of genomic sequence fragments derived from uncultured microbe mixtures in environmental and clinical samples
Takashi Abe et al.
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Evolutionary implications of microbial genome tetranucleotide frequency biases
DT Pride et al.
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