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bipartite (version 1.03)

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

1.03

License

GPL

Maintainer

Carsten F Dormann

Last Published

November 5th, 2009

Functions in bipartite (1.03)

Safariland

Pollination web in Argentina.
bipartite-package

Analysis of bipartite ecological webs.
inouye1988

A pollination network.
motten1982

A pollination network.
mosquin1967

Pollination network.
nested

Calculates any of several measures of nestedness
ollerton2003

ollerton2003
shuffle.web

Shuffle web entries
second.extinct

Secondary extinctions in bipartite networks
C.score

Calculates the (normalised) mean number of checkerboard combinations (C-score) in a matrix
small1976

A pollination network.
functspec

Calculates the functional specialisation index
barrett1987

Individuals caught in a pollination web in boreal Canada.
as.one.mode

Conversion of a network matrix
H2fun

Specialisation of a bipartite web.
extinction

Simulates extinction of a species from a bipartite network
dfun

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

Generate a random bipartite web
nodespec

Calculates the node-based specialisation index
kevan1970

A pollination network.
vazmasc

A pollination network.
elberling1999

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

Calculates discrepancy of a matrix
visweb

Plotfunction to visualize a bipartite foodweb
vazquec

A pollination network.
V.ratio

Calculates the variance-ratio as suggested by Schluter (1984)
null.t.test

Compares observed pattern to random webs.
vazmasnc

A pollination network.
specieslevel

Calculate various indices for network properties at the species level
olesen2002aigrettes

A pollination network.
vazquenc

A pollination network.
vazarr

A pollination network.
vazllao

A pollination network.
vazcer

A pollination network.
degreedistr

Fits functions to cumulative degree distributions of both trophic levels of a network.
kato1990

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

Visualize a bipartite interaction matrix (e.g. a foodweb)
swap.web

Creates null model for bipartite networks
nestedness

Calculates nestedness temperature of presence/absence matrices
togetherness

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

Deletes empty rows and columns from a matrix.
networklevel

Analysis of bipartite webs at the level of the entire network
slope.bipartite

Slope of extinction simulation
compart

Detects compartments
olesen2002flores

A pollination network.
memmott1999

Pollination network.
schemske1978

A pollination network.
sortweb

Function to sort bipartite webs