Discover differentially abundant time intervals for all bacteria
Calculate time intervals of significant differential abundance over all bacteria of a particularly specified level (lvl). If not lvl is specified, all OTUs are analyzed. Warning, function can take a while
metagenomeSeq MRexperiment-class object.
Vector or name of column in featureData of MRexperiment-class object for aggregating counts (if not OTU level).
Number of permutations to perform.
List of lists of matrices of time point intervals of interest, Difference in abundance area and p-value, fit, area permutations.
A list of lists for which each includes:
timeIntervals - Matrix of time point intervals of interest, area of differential abundance, and pvalue.
data - Data frame of abundance, class indicator, time, and id input.
fit - Data frame of fitted values of the difference in abundance, standard error estimates and timepoints interpolated over.
perm - Differential abundance area estimates for each permutation.
call - Function call.
1 2 3