Palaeoecological and Palaeogeographical Analysis Tools

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Documentation for package ‘fossil’ version 0.4.0

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fossil-package fossil: Palaeoecological and Palaeogeographical Analysis Tools
ACE Abundance- and Incidence-based Coverage Estimators
adj.rand.index Rand Index and Adjusted Rand Index
aic.nest Nestedness of samples using AIC
bootstrap Bootstrap Species Richness Estimator
braun.blanquet Similarity/Dissimilarity Indices
bray.curtis Similarity/Dissimilarity Indices
chao.jaccard Chao's Jaccard and Sorenson Estimators of Shared Species
chao.sd Chao's estimation of standard error
chao.sorenson Chao's Jaccard and Sorenson Estimators of Shared Species
chao1 Chao's Species Estimators
chao2 Chao's Species Estimators
coi Cohesiveness Index for Relational Clustering
create.lats Creating a table of Latitudes and Longitudes
create.matrix Creating species locality matrices
deg.dist Haversine Distance Formula
dino.dist Creating a Distance Matrix
dino.msn Calculate a Minimum Spanning Tree or Network
dino.mst Calculate a Minimum Spanning Tree or Network
earth.bear Bearings Between Geographic Locations
earth.dist Calculating Geographic Distances
earth.poly Calculating a Minimum Convex Polygon
earth.tri Calculating the Surface Area Enclosed by Three Geographic Points
ecol.dist Creating a Distance Matrix
euclidean Similarity/Dissimilarity Indices
euler.rot Calculate the Euler Rotation of a Point
fdata.lats A Sample Species Abundance Dataset
fdata.list A Sample Species Abundance Dataset
fdata.mat A Sample Species Abundance Dataset
fossil fossil: Palaeoecological and Palaeogeographical Analysis Tools
ICE Abundance- and Incidence-based Coverage Estimators
int.chao Internal function for chao estimators
jaccard Similarity/Dissimilarity Indices
jack1 First- and second-order jacknife estimators
jack2 First- and second-order jacknife estimators
kulczynski Similarity/Dissimilarity Indices
lats2Shape Converting a Table of Latitudes and Longitudes to a Shapefile
loc.map Mapping Points on a Global Map
localoptima Function to Find Local Optimization for clustering
manhattan Similarity/Dissimilarity Indices
morisita.horn Similarity/Dissimilarity Indices
msn.map Mapping a Minimum Spanning Tree
msn2Shape Convert a Minimum spanning Network or Tree to Shapefile
mstlines Display a Minimum Spanning Tree or Network
new.lat.long Find a New Latitude and Longitude
nmds.mst Creating NMDS plots with overlain Minimum Spanning Trees
ochiai Similarity/Dissimilarity Indices
rand.index Rand Index and Adjusted Rand Index
rclust Relational Clustering
rclust.dist Relational Clustering
rclust.null Relational Clustering
rclust.weights Relational Clustering
relational.clustering Relational Clustering
sac Calculate Species Area Curves
sim.occ Simulated Species Occurrence data
simpson Similarity/Dissimilarity Indices
sorenson Similarity/Dissimilarity Indices
spp.est Estimating Species Diversity
tri.ineq Testing for the Triangle Inequality