spaa: SPecies Association Analysis
Version 0.2.2

Miscellaneous functions for analysing species association and niche overlap.

Browse man pages Browse package API and functions Browse package files

AuthorJinlong Zhang [aut, cre]
Date of publication2016-06-09 19:59:58
MaintainerJinlong Zhang <jinlongzhang01@gmail.com>
LicenseGPL-2
Version0.2.2
URL https://github.com/helixcn/spaa
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("spaa")

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

Functions

XYname Man page Source code
add.col Man page Source code
data2mat Man page Source code
datasample Man page
deg2dec Man page Source code
dist2list Man page Source code
freq.calc Man page Source code
geodist Man page Source code
lab.mat Man page Source code
lgeodist Man page Source code
list2dist Man page Source code
niche.overlap Man page Source code
niche.overlap.boot Man page Source code
niche.overlap.boot.pair Man page Source code
niche.overlap.pair Man page Source code
niche.width Man page Source code
plotlowertri Man page Source code
plotnetwork Man page Source code
sp.assoc Man page Source code
sp.pair Man page Source code
spaa Man page
spaa-package Man page
splist Man page
sub.sp.matrix Man page Source code
testdata Man page
turnover Man page Source code

Files

NAMESPACE
data
data/splist.rda
data/testdata.rda
data/datasample.rda
R
R/lab.mat.R
R/niche.overlap.boot.pair.R
R/geodist.R
R/add.col.R
R/dist2list.R
R/niche.overlap.boot.R
R/plotlowertri.R
R/data2mat.R
R/sp.pair.R
R/sp.assoc.R
R/deg2dec.R
R/list2dist.R
R/niche.overlap.R
R/sub.sp.matrix.R
R/niche.width.R
R/lgeodist.R
R/plotnetwork.R
R/turnover.R
R/XYname.R
R/freq.calc.R
R/niche.overlap.pair.R
README.md
MD5
DESCRIPTION
man
man/deg2dec.Rd
man/data2mat.Rd
man/niche.overlap.Rd
man/spaa-package.Rd
man/lgeodist.Rd
man/datasample.Rd
man/sub.sp.matrix.Rd
man/niche.width.Rd
man/XYname.Rd
man/list2dist.Rd
man/niche.overlap.pair.Rd
man/sp.assoc.Rd
man/lab.mat.Rd
man/add.col.Rd
man/freq.calc.Rd
man/niche.overlap.boot.Rd
man/testdata.Rd
man/sp.pair.Rd
man/plotlowertri.Rd
man/splist.Rd
man/niche.overlap.boot.pair.Rd
man/dist2list.Rd
man/plotnetwork.Rd
man/turnover.Rd
man/geodist.Rd
spaa documentation built on May 19, 2017, 11:26 p.m.