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Proportionality: A Valid Alternative to Correlation for Relative Data
David Lovell et al.
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Josep-Antoni Martin-Fernandez et al.
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Katherine Kennedy et al.
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Susannah J. Salter et al.
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Dirk Gevers et al.
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Joseph N. Paulson et al.
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Paola Piombino et al.
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Paul J. McMurdie et al.
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Diarrhea in young children from low-income countries leads to large-scale alterations in intestinal microbiota composition
Mihai Pop et al.
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voom: precision weights unlock linear model analysis tools for RNA-seq read counts
Charity W. Law et al.
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Andrew D. Fernandes et al.
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Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Michael I. Love et al.
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Jun Chen et al.
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Shrinkage estimation of dispersion in Negative Binomial models for RNA-seq experiments with small sample size
Danni Yu et al.
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Charlotte Soneson et al.
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Marie-Agnes Dillies et al.
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Marti J. Anderson et al.
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Catherine A. Lozupone et al.
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Differential abundance analysis for microbial marker-gene surveys
Joseph N. Paulson et al.
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Count-based differential expression analysis of RNA sequencing data using R and Bioconductor
Simon Anders et al.
NATURE PROTOCOLS (2013)
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Paul J. McMurdie et al.
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Gut Microbiota from Twins Discordant for Obesity Modulate Metabolism in Mice
Vanessa K. Ridaura et al.
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Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data
Franck Rapaport et al.
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EMPeror: a tool for visualizing high-throughput microbial community data
Yoshiki Vázquez-Baeza et al.
GigaScience (2013)
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms
J. Gregory Caporaso et al.
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Models and estimators linking individual-based and sample-based rarefaction, extrapolation and comparison of assemblages
Robert K. Colwell et al.
JOURNAL OF PLANT ECOLOGY (2012)
Dirichlet Multinomial Mixtures: Generative Models for Microbial Metagenomics
Ian Holmes et al.
PLOS ONE (2012)
Hypothesis Testing and Power Calculations for Taxonomic-Based Human Microbiome Data
Patricio S. La Rosa et al.
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Jonathan Friedman et al.
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Daniela M. Witten
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Michael Greenacre
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Application of Two-Part Statistics for Comparison of Sequence Variant Counts
Brandie D. Wagner et al.
PLOS ONE (2011)
Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample
J. Gregory Caporaso et al.
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Moving pictures of the human microbiome
J. Gregory Caporaso et al.
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edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
Mark D. Robinson et al.
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Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments
James H. Bullard et al.
BMC BIOINFORMATICS (2010)
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Paul L. Auer et al.
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A human gut microbial gene catalogue established by metagenomic sequencing
Junjie Qin et al.
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J. Gregory Caporaso et al.
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Forensic identification using skin bacterial communities
Noah Fierer et al.
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Differential expression analysis for sequence count data
Simon Anders et al.
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Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities
Patrick D. Schloss et al.
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Christian L. Lauber et al.
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Testing species abundance models: a new bootstrap approach applied to Indo-Pacific coral reefs
Sean R. Connolly et al.
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A core gut microbiome in obese and lean twins
Peter J. Turnbaugh et al.
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Elizabeth K. Costello et al.
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Mark D. Robinson et al.
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Obesity alters gut microbial ecology
RE Ley et al.
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A taxa-area relationship for bacteria
MC Horner-Devine et al.
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Bioconductor: open software development for computational biology and bioinformatics
RC Gentleman et al.
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Isometric logratio transformations for compositional data analysis
JJ Egozcue et al.
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Zero-inflated models for regression analysis of count data: a study of growth and development
Y Bin Cheung
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Quantifying biodiversity: procedures and pitfalls in the measurement and comparison of species richness
NJ Gotelli et al.
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