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1. microbiome.github.io › course_2021_radboud › beta-diversityChapter 8 Beta diversity | Introduction to microbiome data...

   microbiome.github.io › course_2021_radboud › beta-diversity

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   Investigate the influence of the data transformations on statistical analysis: Visualize community variation with PCoA with the following options: 1) Bray-Curtis distances for compositional data; 2) Euclidean distances for CLR-transformed data.

   • 4 Reproducible Reporting With Rmarkdown

     4 Reproducible Reporting With Rmarkdown - Chapter 8 Beta...

   • 9 Differential Abundance Analysis

     9.3 ANCOM-BC. The analysis of composition of microbiomes...

   • 6 Microbiome Data Exploration

     6 Microbiome Data Exploration - Chapter 8 Beta diversity |...

   • Chapter 7 Alpha Diversity

     Chapter 7 Alpha Diversity - Chapter 8 Beta diversity |...

   • 3 Getting Started

     3 Getting Started - Chapter 8 Beta diversity | Introduction...

   • 10 Study Material

     10 Study Material - Chapter 8 Beta diversity | Introduction...

2. dyerlab.github.io › applied_population_genetics › genetic-distancesApplied Population Genetics - GitHub Pages

   dyerlab.github.io › applied_population_genetics › genetic-distances

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   20.1.3 Bray-Curtis Individual Distance. A distance metric that can be used to test differences among individuals or populations is that of Bray-Curtis. This distance is a transformation of Jaccard’s distance (see below) and is derived from an ecological ordination paper by Bray & Curtis (1957).

3. uw.pressbooks.pub › appliedmultivariatestatistics › chapterCommon Distance Measures – Applied Multivariate Statistics in R

   uw.pressbooks.pub › appliedmultivariatestatistics › chapter

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   Bray-Curtis Distance. When the formula for Sorensen dissimilarity is extended from presence/absence data to species abundance data, it results in the Bray-Curtis distance measure:

4. scikit.bio › docs › latestCommunity Diversity (skbio.diversity) — scikit-bio 0.6.1...

   scikit.bio › docs › latest

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   Next we’ll do some work with these beta diversity distance matrices. First, we’ll determine if the UniFrac and Bray-Curtis distance matrices are significantly correlated by computing the Mantel correlation between them. Then we’ll determine if the p-value is significant based on an alpha of 0.05.

5. stackoverflow.com › questions › 51200770vegan - Bray-Curtis Pairwise Analysis in R - Stack Overflow

   stackoverflow.com › questions › 51200770

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   6 lip 2018 · I am trying to calculate and visualize the Bray-Curtis dissimilarity between communities at paired/pooled sites using the Vegan package in R. Below is a simplified example dataframe:

6. econ.upf.edu › ~michael › stanfordChapter 5 Measures of distance between samples: non-Euclidean -...

   econ.upf.edu › ~michael › stanford

   In this chapter we shall consider several non-Euclidean distance measures that are popular in the environmental sciences: the Bray-Curtis dissimilarity, the L1 distance (also called the city-block or Manhattan distance) and the Jaccard index for presence-absence data.

7. www.sciencedirect.com › science › articleBeta-diversity distance matrices for microbiome sample size and...

   www.sciencedirect.com › science › article

   1 sty 2022 · In microbiome studies, researchers often wish to compare the taxa count distributions between groups of samples. Commonly-used corresponding methods of analysis are built on examining distance matrices, where distances describe the beta-diversity between samples.