Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible
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DOI: 10.1371/journal.pcbi.1003531
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- Andrea Quagliariello & Alessandra Modi & Gabriel Innocenti & Valentina Zaro & Cecilia Conati Barbaro & Annamaria Ronchitelli & Francesco Boschin & Claudio Cavazzuti & Elena Dellù & Francesca Radina & , 2022. "Ancient oral microbiomes support gradual Neolithic dietary shifts towards agriculture," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
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- Kurtis Shuler & Samuel Verbanic & Irene A. Chen & Juhee Lee, 2021. "A Bayesian nonparametric analysis for zero‐inflated multivariate count data with application to microbiome study," Journal of the Royal Statistical Society Series C, Royal Statistical Society, vol. 70(4), pages 961-979, August.
- Dawid Nosek & Tomasz Mikołajczyk & Agnieszka Cydzik-Kwiatkowska, 2023. "Anode Modification with Fe 2 O 3 Affects the Anode Microbiome and Improves Energy Generation in Microbial Fuel Cells Powered by Wastewater," IJERPH, MDPI, vol. 20(3), pages 1-21, January.
- Pratheepa Jeganathan & Susan P. Holmes, 2021. "A Statistical Perspective on the Challenges in Molecular Microbial Biology," Journal of Agricultural, Biological and Environmental Statistics, Springer;The International Biometric Society;American Statistical Association, vol. 26(2), pages 131-160, June.
- Tianchen Xu & Ryan T. Demmer & Gen Li, 2021. "Zero‐inflated Poisson factor model with application to microbiome read counts," Biometrics, The International Biometric Society, vol. 77(1), pages 91-101, March.
- Jianshi Jin & Reiko Yamamoto & Tadashi Takeuchi & Guangwei Cui & Eiji Miyauchi & Nozomi Hojo & Koichi Ikuta & Hiroshi Ohno & Katsuyuki Shiroguchi, 2022. "High-throughput identification and quantification of single bacterial cells in the microbiota," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
- Francesco Spennati & Salvatore La China & Giovanna Siracusa & Simona Di Gregorio & Alessandra Bardi & Valeria Tigini & Gualtiero Mori & David Gabriel & Giulio Munz, 2021. "Tannery Wastewater Recalcitrant Compounds Foster the Selection of Fungi in Non-Sterile Conditions: A Pilot Scale Long-Term Test," IJERPH, MDPI, vol. 18(12), pages 1-18, June.
- Georgia Charalampous & Efsevia Fragkou & Konstantinos A. Kormas & Alexandre B. De Menezes & Paraskevi N. Polymenakou & Nikos Pasadakis & Nicolas Kalogerakis & Eleftheria Antoniou & Evangelia Gontikaki, 2021. "Comparison of Hydrocarbon-Degrading Consortia from Surface and Deep Waters of the Eastern Mediterranean Sea: Characterization and Degradation Potential," Energies, MDPI, vol. 14(8), pages 1-18, April.
- Stijn Hawinkel & J C W Rayner & Luc Bijnens & Olivier Thas, 2020. "Sequence count data are poorly fit by the negative binomial distribution," PLOS ONE, Public Library of Science, vol. 15(4), pages 1-16, April.
- Robert H. Lampe & Tyler H. Coale & Kiefer O. Forsch & Loay J. Jabre & Samuel Kekuewa & Erin M. Bertrand & Aleš Horák & Miroslav Oborník & Ariel J. Rabines & Elden Rowland & Hong Zheng & Andreas J. And, 2023. "Short-term acidification promotes diverse iron acquisition and conservation mechanisms in upwelling-associated phytoplankton," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
- Cameron Wagg & Aafke van Erk & Erica Fava & Louis-Pierre Comeau & T. Fatima Mitterboeck & Claudia Goyer & Sheng Li & Andrew McKenzie-Gopsill & Aaron Mills, 2021. "Full-Season Cover Crops and Their Traits That Promote Agroecosystem Services," Agriculture, MDPI, vol. 11(9), pages 1-26, August.
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