`install.packages('EcoSimR')`

17

0.1.0

MIT + file LICENSE

April 3rd, 2015

czekanowski_var

CzekanowskiVariance Niche Overlap Metric

ra4

RA4 Niche Overlap Randomization Algorithm

ra3

RA3 Niche Overlap Randomization Algorithm

v_ratio

SchlutersVRatio Co-occurrence Metric

sim2

Sim2 Co-occurrence Randomization Algorithm

summary.coocnullmod

Generic function for calculating null model summary statistics.

cooc_null_model

Co-Occurrence Null model

ra1

RA1 Niche Overlap Randomization Algorithm

czekanowski

Czekanowski Niche Overlap Metric

ra2

RA2 Niche Overlap Randomization Algorithm

plot.nullmod

plot a histogram null model

var_ratio

VarRatio Size Overlap Ratio Metric

sim6

Sim6 Co-occurrence Randomization Algorithm

pianka_var

PiankaVariance Niche Overlap Metric

c_score

CScore Co-occurrence Metric

sim10

Sim10 Co-occurrence Randomization Algorithm

size_gamma

SizeGamma Size Overlap Randomization Algorithm

size_uniform

SizeUniform Size Overlap Randomization Algorithm

sim4

Sim4 Co-occurrence Randomization Algorithm

dataWiFinches

West Indian Finches data
This data frame is a binary presence-absence matrix for West Indies finches (Fringillidae). Each row is a different species of finch and each column is one of the 19 major islands in the West Indies. Entries indicate the presence (1) or absence (0) of a species on an island. Data from Gotelli and Abele (1982).

EcoSimR

EcoSimR
EcoSimR is a collection of functions for calculating community metrics and algorithms for randomizing community data for null model analysis. Current modules are included for the analysis of niche overlap, body size overlap, and species co-occurrence. EcoSimR also allows users to define their own functions and algorithms to develop new null models.

plot.nichenullmod

Niche Null Model Plot function

summary.nichenullmod

Generic function for calculating null model summary statistics

dataMacWarb

MacArthur's (1958) warbler data
This data matrix is from MacArthur's classic (1958) paper on the coexistence of 5 species of New England warbler. Each row of the data matrix is a different species of warbler, and each column is one of 16 different subregions of a coniferous tree. Each entry is the percentage of time that each species was observed foraging in a different subregion of the tree (see Figures 2-4 in MacArthur 1958). Zeroes indicate subregions of the tree in which a species was not recorded foraging.

checker

Checker Co-occurrence Metric

min_diff

MinDiff Size Overlap Metric

sim5

Sim5 Co-occurrence Randomization Algorithm

summary.sizenullmod

Generic function for calculating null model summary statistics

sim1

Sim1 Co-occurrence Randomization Algorithm

c_score_var

CScoreVariance Co-occurrence Metric

summary.nullmod

Generic function for calculating null model summary statistics

plot.coocnullmod

Co-Occurrence Model Plot Function

size_uniform_user

SizeUser Size Overlap Randomization Algorithm

sim3

Sim3 Co-occurrence Randomization Algorithm

sim9_single

sim9_single

min_ratio

MinRatio Size Overlap Ratio Metric

dataRodents

Desert rodent data set
This data vector is from Brown's (1975) study of the coexistence of desert rodent species. Each entry is the average adult body mass in grams of six co-occurring species of Sonoran Desert rodents.

reproduce_model

Reproduce a result

sim9

Sim9 Co-occurrence Randomization Algorithm

size_null_model

Size Ratio

plot.sizenullmod

Size Ratio Plot Function

pianka

Pianka Niche Overlap Metric

czekanowski_skew

CzekanowskiSkew Niche Overlap Metric

niche_null_model

Niche overlap null models

pianka_skew

PiankaSkew Niche Overlap Metric

sim7

Sim7 Co-occurrence Randomization Algorithm

ranMatGen

Random Matrix Generator

size_source_pool

SizeSourcePoolDraw Size Overlap Randomization Algorithm

var_diff

VarDiff Size Overlap Ratio Metric

c_score_skew

CScoreSkew Co-occurrence Metric

null_model_engine

Run null model

sim8

Sim8 Co-occurrence Randomization Algorithm

vector_sample

Vector Sample Function

species_combo

SpeciesCombo Co-occurrence Metric