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bipartite (version 0.90)

Visualising bipartite networks and calculating some ecological indices.

Description

Bipartite provides functions to viualise webs and calculate a series of indices commonly used to describe pattern in ecological webs. It focusses on webs consisting of only two trophic levels, e.g. pollination webs or predator-prey-webs. Visualisation is important to get an idea of what we are actually looking at, while the indices summarise different aspects of the webs topology.

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Version

Install

install.packages('bipartite')

Monthly Downloads

4,957

Version

0.90

License

GPL

Maintainer

Carsten F Dormann

Last Published

March 24th, 2009

Functions in bipartite (0.90)

kevan1970

A pollination network.
dfun

Calculates standardised specialisation index d' (d prime) for each species in the lower trophic level of a bipartite network.
vazarr

A pollination network.
togetherness

Calculates the number of identical co-presences and co-absences for species-on-islands
memmott1999

Pollination network.
genweb

Generate a random bipartite web
functspec

Calculates the functional specialisation index
vazllao

A pollination network.
extinction

Simulates extinction of a species from a bipartite network
as.one.mode

Conversion of a network matrix
null.t.test

Compares observed pattern to random webs.
schemske1978

A pollination network.
plotweb

Visualize a bipartite interaction matrix (e.g. a foodweb)
vazmasc

A pollination network.
slope.bipartite

Slope of extinction simulation
swap.web

Creates null model for bipartite networks
mosquin1967

Pollination network.
shuffle.web

Shuffle web entries
compart

Detects compartments
olesen2002aigrettes

A pollination network.
second.extinct

Secondary extinctions in bipartite networks
small1976

A pollination network.
vazquenc

A pollination network.
vazquec

A pollination network.
Safariland

Pollination web in Argentina.
bipartite-package

Analysis of bipartite ecological webs.
networklevel

Analysis of bipartite webs at the level of the entire network
motten1982

A pollination network.
visweb

Plotfunction to visualize a bipartite foodweb
inouye1988

A pollination network.
V.ratio

Calculates the variance-ratio as suggested by Schluter (1984)
degreedistr

Fits functions to cumulative degree distributions of both trophic levels of a network.
specieslevel

Calculate various indices for network properties at the species level
nodespec

Calculates the node-based specialisation index
empty

Deletes empty rows and columns from a matrix.
sortweb

Function to sort bipartite webs
elberling1999

No. of visits in a pollination web of arctic-alpine Sweden.
olesen2002flores

A pollination network.
vazcer

A pollination network.
C.score

Calculates the (normalised) mean number of checkerboard combinations (C-score) in a matrix
vazmasnc

A pollination network.
H2fun

Specialisation of a bipartite web.
nestedness.corso

Calculates the (weighted) nestedness of a network according to the method proposed by Corso et al. (2008), with weighting option by Galeano et al. (2008).
nestedness

Calculates nestedness temperature of presence/absence matrices
kato1990

No. of individuals caught in a pollination web of a Japanese beech forest.
barrett1987

Individuals caught in a pollination web in boreal Canada.