spaa-package: SPecies Association Analysis

In spaa: SPecies Association Analysis

SPecies Association Analysis

Description

Miscellaneous functions for analysis of species association and niche overlap.

Details

Package:	spaa
Type:	Package
Version:	0.2.5
Date:	2024-12-23
License:	GPL-2
LazyLoad:	yes

Author(s)

Author: Jinlong Zhang [e-mail]

Maintainer: Jinlong Zhang [e-mail]

Examples

data(testdata)
testdata

data(splist)
splist

### data tranformation
(spmatrix <- data2mat(testdata))
#Species association
sp.assoc(spmatrix)

# Species association between each pair of species
(result <- sp.pair(spmatrix))

#### Niche width and niche overlap
data(datasample)
niche.overlap.boot(datasample[,1:3], method = "levins")
niche.overlap(datasample, method = "levins")
niche.width(datasample[,1:3], method = "shannon")

##example turnover()
plotlab1 <- XYname(4,6)
xxx <- 1:240
dim(xxx) <- c(24, 10)
rownames(xxx) <- plotlab1

### Distance between each pair of plots
ddd <- dist(xxx)

### label matrix
labmat1 <- lab.mat(plotlab1)
yyy <- turnover(labmat1, ddd)

## geodist() example
## Paris
L1 = deg2dec(-2,20,14)
phi1 = deg2dec(48, 50, 11)
## Washington DC
L2 = deg2dec(77,03,56)
phi2 = deg2dec(38,55,17)

##High precision Great Circle distance
geodist(L1, phi1, L2, phi2)

spaa documentation built on April 4, 2025, 2:41 a.m.