spaa: SPecies Association Analysis

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Miscellaneous functions for analysing species association and niche overlap.

Author
Jinlong Zhang [aut, cre]
Date of publication
2016-06-09 19:59:58
Maintainer
Jinlong Zhang <jinlongzhang01@gmail.com>
License
GPL-2
Version
0.2.2
URLs

View on CRAN

Man pages

add.col
Add one column from A to B, according to one column of common...
data2mat
Convert species list data to species matrix
datasample
community matrix example
deg2dec
Degree to decimal
dist2list
Convert distance matrix to pairwised list
freq.calc
Species relative frequency
geodist
Hight precision Great circle distance between two places
lab.mat
Convert vector of XY labels to label matrix
lgeodist
Low precision Great circle distance between two places
list2dist
Convert pairwise list to distance matrix
niche.overlap
Niche overlap between each pair of species
niche.overlap.boot
Boostrap of niche overlap
niche.overlap.boot.pair
Niche overlap boostrap utility function
niche.overlap.pair
Niche overlap between one pair of species.
niche.width
Niche width
plotlowertri
Plotting lower semi matrix
plotnetwork
Correlation network plot
spaa-package
SPecies Association Analysis
sp.assoc
Total species association
splist
species list used in function add.col()
sp.pair
Species association between each pair of species
sub.sp.matrix
Subset species matrix according to relative frequency
testdata
Example Data
turnover
Calculating species turnover
XYname
Generating vector of XY labels

Files in this package

spaa
spaa/NAMESPACE
spaa/data
spaa/data/splist.rda
spaa/data/testdata.rda
spaa/data/datasample.rda
spaa/R
spaa/R/lab.mat.R
spaa/R/niche.overlap.boot.pair.R
spaa/R/geodist.R
spaa/R/add.col.R
spaa/R/dist2list.R
spaa/R/niche.overlap.boot.R
spaa/R/plotlowertri.R
spaa/R/data2mat.R
spaa/R/sp.pair.R
spaa/R/sp.assoc.R
spaa/R/deg2dec.R
spaa/R/list2dist.R
spaa/R/niche.overlap.R
spaa/R/sub.sp.matrix.R
spaa/R/niche.width.R
spaa/R/lgeodist.R
spaa/R/plotnetwork.R
spaa/R/turnover.R
spaa/R/XYname.R
spaa/R/freq.calc.R
spaa/R/niche.overlap.pair.R
spaa/README.md
spaa/MD5
spaa/DESCRIPTION
spaa/man
spaa/man/deg2dec.Rd
spaa/man/data2mat.Rd
spaa/man/niche.overlap.Rd
spaa/man/spaa-package.Rd
spaa/man/lgeodist.Rd
spaa/man/datasample.Rd
spaa/man/sub.sp.matrix.Rd
spaa/man/niche.width.Rd
spaa/man/XYname.Rd
spaa/man/list2dist.Rd
spaa/man/niche.overlap.pair.Rd
spaa/man/sp.assoc.Rd
spaa/man/lab.mat.Rd
spaa/man/add.col.Rd
spaa/man/freq.calc.Rd
spaa/man/niche.overlap.boot.Rd
spaa/man/testdata.Rd
spaa/man/sp.pair.Rd
spaa/man/plotlowertri.Rd
spaa/man/splist.Rd
spaa/man/niche.overlap.boot.pair.Rd
spaa/man/dist2list.Rd
spaa/man/plotnetwork.Rd
spaa/man/turnover.Rd
spaa/man/geodist.Rd