Microbiota STability ASsessment via Iterative cluStering


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Documentation for package ‘microSTASIS’ version 1.6.0

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clr Detected ASV from multiple individuals at four different sampling times.
iterativeClustering Stability of individuals after iteratively performing Hartigan-Wong k-means clustering.
iterativeClusteringCV Cross validation of the iterative Hartigan-Wong k-means clustering.
mSerrorCV Compute the mean absolute error (MAE) in percentage after 'iterativeClusteringCV()'.
mSinternalPairedTimes Internal function for 'pairedTimes()'.
mSmetadataGroups Easily extract groups of individuals from sample metadata.
mSpreviz Process the 'iterativeClustering()' output to a new format ready for the implemented visualization functions.
pairedTimes Generate one or multiple matrices with paired times.
pairedTimes-method Generate one or multiple matrices with paired times.
plotmSdynamics Generate boxplots of the stability dynamics throughout sampling times by groups.
plotmSheatmap Plot a heatmap of the stability results.
plotmSlinesCV Plot the stability values after 'iterativeClusteringCV()'.
plotmSscatter Plot a scatter and side boxplot of the stability results.