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 |

https://github.com/helixcn/spaa |

**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

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
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