Analysis of differential abundance taking sample variation into account
Compute an 'aldex.clr' Object Generate Monte Carlo samples of the Dirichlet distribution for each sample. Convert each instance using a centered log-ratio transform. This is the input for all further analyses.
Calculate correlation with a continuous variable
Calculate effect sizes and differences between conditions
Calculate the expected values of distances between samples, given an 'aldex' Object
Calculate glm test statistics using a 'model.matrix'
calculate effect sizes and differences between all contrasts for the aldex.glm model matrix
Calculate the Kruskal-Wallis test and glm statistics
Generate a differential scale matrix by group
Show dispersion of the expected values returned by 'aldex.effect'
Sensitivity analysis using scale simulation
identify set of denominator features for log-ratio calculation
Calculate Wilcoxon Rank Sum test and Welch's t-test statistics
Interpret the scale model implied by a certain level of gamma or scale model
Create gamma diagram for scale simulation sensitivity result
Selection-based differential sequence variant abundance dataset