stochasticity_is: Stochasticity by Independent Swap
In jfq3/QsNullModels: My null model functions

Description Usage Arguments Details Value Author(s) References

This function calculates stochasticity based on the Jaccard dissimilarity as defined in Zhou et al. (2014) by randomizing a binary community matrix with picante's independentswap algorithm.

1	stochasticity_is(com, n.reps=999)

`com`	A binary community matrix.
`n.reps`	Number of replications.

The binary community matrix is randomized using picante's function randomizeMatrix with method="independentswap." The independent swap algorithm maintains both row and column totals.

A vector of stochasticity values.

John Quensen

Zhou, J. Z., Y. Deng, P. Zhang, K. Xue, Y. T. Liang, J. D. Van Nostrand, Y. F. Yang, Z. L. He, L. Y. Wu, D. A. Stahl, T. C. Hazen, J. M. Tiedje, and A. P. Arkin. 2014. Stochasticity, succession, and environmental perturbations in a fluidic ecosystem. Proceedings of the National Academy of Sciences of the United States of America 111:E836-E845.

jfq3/QsNullModels documentation built on April 6, 2020, 2:06 p.m.