Webb1 nov. 2024 · Simpson's indices are a way of quantifying the biodiversity of communities. The value of Simpson's index reflects how many different types of species are in a … WebbSome of the most popular beta diversity measures in microbiome research include Bray-Curtis index (for compositional data), Jaccard index (for presence / absence data, ignoring abundance information), Aitchison distance (Euclidean distance for clr transformed abundances, aiming to avoid the compositionality bias), and the Unifrac distances (that …
simpson: Simpson
http://www.countrysideinfo.co.uk/simpsons.htm Webbscipy.integrate.simpson(y, x=None, dx=1.0, axis=-1, even='avg') [source] # Integrate y (x) using samples along the given axis and the composite Simpson’s rule. If x is None, spacing of dx is assumed. If there are an even number of samples, N, then there are an odd number of intervals (N-1), but Simpson’s rule requires an even number of intervals. flood stain and sealer
Measuring diversity: the importance of species similarity
WebbReturns the Simpson index D D: the probability that two randomly sampled individuals belong to different species. There is some confusion as to the precise definition: some … Webbto them a set of useful tools including species similarity indices, species estimators, minimum spanning tree/forest functions, and an assortment of other useful tools. Author(s) Matthew Vavrek Webbsimpson - the Simpson index invsimpson - the inverse Simpson index (1/D) coverage - the sampling coverage coverage qstat - the Q statistic Estimates of number of additional OTUs observed with extra sampling boneh - Boneh’s estimator efron - Efron’s estimator shen - Shen’s estimator solow - Solow’s estimator Statistical distributions flood spot