Software Open Access
New utility functions
calibrate() provide easy-to-use high-level interfaces to the original metacal bias-estimation and calibration method. Their use is illustrated in the new tutorial.
pairwise_ratios() allows computing ratios between pairs of taxa and/or samples.
perturb() applies a compositional perturbation to all observations in an abundance matrix (or phyloseq object).
The new functions
pairwise_ratios() all work with objects from the phyloseq package as well as plain matrices. Phyloseq is now a required dependency, though may be made optional in the future.
coocurrence_matrix()when names were missing (#5).