PHYLOSEQ: A BIOCONDUCTOR PACKAGE FOR HANDLING AND ANALYSIS OF HIGH-THROUGHPUT PHYLOGENETIC SEQUENCE DATA

بواسطة McMURDIE, PAUL J., HOLMES, SUSAN
منشور في 2012

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

بواسطة McMurdie, Paul J., Holmes, Susan
منشور في 2013

Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible

بواسطة McMurdie, Paul J., Holmes, Susan
منشور في 2014

Shiny-phyloseq: Web application for interactive microbiome analysis with provenance tracking

بواسطة McMurdie, Paul J., Holmes, Susan
الحاوية / القاعدة Bioinformatics (2015)

Exact sequence variants should replace operational taxonomic units in marker-gene data analysis

بواسطة Callahan, Benjamin J, McMurdie, Paul J, Holmes, Susan P
الحاوية / القاعدة ISME J (2017)

Unusual Codon Bias in Vinyl Chloride Reductase Genes of Dehalococcoides Species

بواسطة McMurdie, Paul J., Behrens, Sebastian F., Holmes, Susan, Spormann, Alfred M.
منشور في 2007

Site-Specific Mobilization of Vinyl Chloride Respiration Islands by a Mechanism Common in Dehalococcoides

بواسطة McMurdie, Paul J, Hug, Laura A, Edwards, Elizabeth A, Holmes, Susan, Spormann, Alfred M
منشور في 2011

Bioconductor Workflow for Microbiome Data Analysis: from raw reads to community analyses

بواسطة Callahan, Ben J., Sankaran, Kris, Fukuyama, Julia A., McMurdie, Paul J., Holmes, Susan P.
الحاوية / القاعدة F1000Res (2016)

Monitoring Abundance and Expression of “Dehalococcoides” Species Chloroethene-Reductive Dehalogenases in a Tetrachloroethene-Dechlorinating Flow Column

بواسطة Behrens, Sebastian, Azizian, Mohammad F., McMurdie, Paul J., Sabalowsky, Andrew, Dolan, Mark E., Semprini, Lew, Spormann, Alfred M.
منشور في 2008

DADA2: High resolution sample inference from Illumina amplicon data

بواسطة Callahan, Benjamin J, McMurdie, Paul J, Rosen, Michael J, Han, Andrew W, Johnson, Amy Jo A, Holmes, Susan P
الحاوية / القاعدة Nat Methods (2016)

Butyrate-producing human gut symbiont, Clostridium butyricum, and its role in health and disease

بواسطة Stoeva, Magdalena K., Garcia-So, Jeewon, Justice, Nicholas, Myers, Julia, Tyagi, Surabhi, Nemchek, Madeleine, McMurdie, Paul J., Kolterman, Orville, Eid, John
الحاوية / القاعدة Gut Microbes (2021)

Localized Plasticity in the Streamlined Genomes of Vinyl Chloride Respiring Dehalococcoides

بواسطة McMurdie, Paul J., Behrens, Sebastian F., Müller, Jochen A., Göke, Jonathan, Ritalahti, Kirsti M., Wagner, Ryan, Goltsman, Eugene, Lapidus, Alla, Holmes, Susan, Löffler, Frank E., Spormann, Alfred M.
منشور في 2009

Hydrogen production in photosynthetic microbial mats in the Elkhorn Slough estuary, Monterey Bay

بواسطة Burow, Luke C, Woebken, Dagmar, Bebout, Brad M, McMurdie, Paul J, Singer, Steven W, Pett-Ridge, Jennifer, Prufert-Bebout, Leslie, Spormann, Alfred M, Weber, Peter K, Hoehler, Tori M
منشور في 2012

Temporal and spatial variation of the human microbiota during pregnancy

بواسطة DiGiulio, Daniel B., Callahan, Benjamin J., McMurdie, Paul J., Costello, Elizabeth K., Lyell, Deirdre J., Robaczewska, Anna, Sun, Christine L., Goltsman, Daniela S. A., Wong, Ronald J., Shaw, Gary, Stevenson, David K., Holmes, Susan P., Relman, David A.
الحاوية / القاعدة Proc Natl Acad Sci U S A (2015)

Advancing our understanding of the human microbiome using QIIME

بواسطة Navas-Molina, José A., Peralta-Sánchez, Juan M., González, Antonio, McMurdie, Paul J., Vázquez-Baeza, Yoshiki, Xu, Zhenjiang, Ursell, Luke K., Lauber, Christian, Zhou, Hongwei, Song, Se Jin, Huntley, James, Ackermann, Gail L., Berg-Lyons, Donna, Holmes, Susan, Caporaso, J. Gregory, Knight, Rob
الحاوية / القاعدة Methods Enzymol (2013)