hypervolume - High Dimensional Geometry, Set Operations, Projection, and Inference Using Kernel Density Estimation, Support Vector Machines, and Convex Hulls

Estimates the shape and volume of high-dimensional datasets and performs set operations: intersection / overlap, union, unique components, inclusion test, and hole detection. Uses stochastic geometry approach to high-dimensional kernel density estimation, support vector machine delineation, and convex hull generation. Applications include modeling trait and niche hypervolumes and species distribution modeling.

Last updated 7 months ago

8.44 score 21 stars 7 packages 193 scripts 1.6k downloads

comclim - Community Climate Statistics

Computes community climate statistics for volume and mismatch using species' climate niches either unscaled or scaled relative to a regional species pool. These statistics can be used to describe biogeographic patterns and infer community assembly processes. Includes a vignette outlining usage.

Last updated 10 months ago

3.48 score 3 stars 7 scripts 321 downloads

timeordered - Time-Ordered and Time-Aggregated Network Analyses

Approaches for incorporating time into network analysis. Methods include: construction of time-ordered networks (temporal graphs); shortest-time and shortest-path-length analyses; resource spread calculations; data resampling and rarefaction for null model construction; reduction to time-aggregated networks with variable window sizes; application of common descriptive statistics to these networks; vector clock latencies; and plotting functionalities. The package supports <doi:10.1371/journal.pone.0020298>.

Last updated 2 months ago

2.94 score 3 stars 29 scripts 284 downloads

netassoc - Inference of Species Associations from Co-Occurrence Data

Infers species associations from community matrices. Uses local and (optional) regional-scale co-occurrence data by comparing observed partial correlation coefficients between species to those estimated from regional species distributions. Extends Gaussian graphical models to a null modeling framework. Provides interface to a variety of inverse covariance matrix estimation methods.

Last updated 2 years ago

2.30 score 2 stars 9 scripts 165 downloads