MetaLonDA1.1.8 package

Metagenomics Longitudinal Differential Abundance Method

areaPermutation

Calculate Area Ratio (AR) of each feature's time interval for all perm...

curveFitting

Fit longitudinal data

findSigInterval

Find significant time intervals

intervalArea

Calculate Area Ratio (AR) of each feature's time interval

metalonda

Metagenomic Longitudinal Differential Abundance Analysis for one featu...

metalondaAll

Metagenomic Longitudinal Differential Abundance Analysis for all Featu...

normalize

Normalize count matrix

permutation

Permute group labels

visualizeArea

Visualize significant time interval

visualizeARHistogram

Visualize Area Ratio (AR) empirical distribution

visualizeFeature

Visualize Longitudinal Feature

visualizeFeatureSpline

Visualize the feature trajectory with the fitted Splines

visualizeTimeIntervals

Visualize all significant time intervals for all tested features

visualizeVolcanoPlot

Visualize log2 fold-change and significance of each interval as volcan...

Download source packageRead PDF manual

Identify time intervals of differentially abundant metagenomic features in longitudinal studies (Metwally AA, et al., Microbiome, 2018 <doi:10.1186/s40168-018-0402-y>).

  • Maintainer: Ahmed A. Metwally
  • License: MIT + file LICENSE
  • Last published: 2019-12-18

Useful links