article-journal

Meta-analysis of 22,710 human microbiome metagenomes defines an oral-to-gut microbial enrichment score and associations with host health and disease
Paolo Manghi, Giacomo Antonello, Lucas Schiffer, Davide Golzato, Andres Wokaty, Francesco Beghini, Chloe Mirzayi, Kaelyn Long, Kai Gravel-Pucillo, Gianmarco Piccinno, Samuel David Gamboa-Tuz, Arianna Bonetti, Giacomo D'Amato, Rimsha Azhar, Kelly Eckenrode, Fatima Zohra, Valentina Giunchiglia, Marisa Keller, Anna Pedrotti, Ilya Likhotkin, Shaimaa Elsafoury, Ludwig Geistlinger, Aitor Blanco-Miguez, Andrew Maltez Thomas, Moreno Zolfo, Marcel Ramos, Mireia Valles-Colomer, Sabrina Tamburini, Francesco Asnicar, Heidi E Jones, Curtis Huttenhower, Vincent Carey, Sean Davis, Edoardo Pasolli, Sehyun Oh, Nicola Segata, Levi Waldron
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bamSliceR: a Bioconductor package for rapid, cross-cohort variant and allelic bias analysis
Yizhou Peter Huang, Lauren Harmon, Eve Deering-Gardner, Xiaotu Ma, Josiah Harsh, Zhaoyu Xue, Hong Wen, Marcel Ramos, Sean Davis, Jr, Timothy J Triche
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Learning and teaching biological data science in the Bioconductor community
Jenny Drnevich, Frederick J Tan, Fabricio Almeida-Silva, Robert Castelo, Aedin C Culhane, Sean Davis, Maria A Doyle, Ludwig Geistlinger, Andrew R Ghazi, Susan Holmes, Leo Lahti, Alexandru Mahmoud, Kozo Nishida, Marcel Ramos, Kevin Rue-Albrecht, David J H Shih, Laurent Gatto, Charlotte Soneson
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Eleven quick tips for writing a Bioconductor package
Charlotte Soneson, Lori Shepherd, Marcel Ramos, Kevin Rue-Albrecht, Johannes Rainer, Hervé Pagès, Vincent J Carey
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Eleven quick tips for writing a Bioconductor package
Charlotte Soneson, Lori Shepherd, Marcel Ramos, Kevin Rue-Albrecht, Johannes Rainer, Hervé Pagès, Vincent J Carey
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Commonly used compositional data analysis implementations are not advantageous in microbial differential abundance analyses benchmarked against biological ground truth
Samuel D Gamboa-Tuz, Marcel Ramos, Eric Franzosa, Curtis Huttenhower, Nicola Segata, Sehyun Oh, Levi Waldron
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Bioconductor's computational ecosystem for genomic data science in cancer
Marcel Ramos, Lori Shepherd, Nathan C Sheffield, Alexandru Mahmoud, Hervé Pagès, Andres Wokaty, Dario Righelli, Davide Risso, Sean Davis, Sehyun Oh, Levi Waldron, Martin Morgan, Vincent Carey
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lefser: implementation of metagenomic biomarker discovery tool, LEfSe, in R
Asya Khleborodova, Samuel D Gamboa-Tuz, Marcel Ramos, Nicola Segata, Levi Waldron, Sehyun Oh
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AnVILWorkflow: A runnable workflow package for Cloud-implemented bioinformatics analysis pipelines
Sehyun Oh, Kai Gravel-Pucillo, Marcel Ramos, Michael C Schatz, Sean Davis, Vincent Carey, Martin Morgan, Levi Waldron
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Learning and teaching biological data science in the Bioconductor community
Jenny Drnevich, Frederick J Tan, Fabricio Almeida-Silva, Robert Castelo, Aedin C Culhane, Sean Davis, Maria A Doyle, Ludwig Geistlinger, Andrew R Ghazi, Susan Holmes, Leo Lahti, Alexandru Mahmoud, Kozo Nishida, Marcel Ramos, Kevin Rue-Albrecht, David J H Shih, Laurent Gatto, Charlotte Soneson
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