`install.packages('bipartite')`

4,003

2.16

GPL

February 4th, 2021

C.score

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

array2linkmx

Reshape a webarray to a web X link matrix

H2fun

Specialisation of a bipartite web.

ND

Normalised degree, betweenness and closeness centrality

PDI

Paired Differences Index

Safariland

A pollination web from Argentina

V.ratio

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

PAC

Potential for Apparent Competition

as.one.mode

Conversion of a network matrix

NOS

Calculates the node overlap and separation according to Strona \& Veech (2015)

as.tnet

Ensures that networks conform to the tnet stardards

barrett1987

Individuals caught in a pollination web in boreal Canada.

bezerra2009

Individuals observed in a flower-visitation network of oil-collecting bees in a Brazilian steppe.

dfun

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

frame2webs

Converts a table of observations into a network matrix

fc

Calculates the functional complementarity for the rows of a web

degreedistr

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

linklevel

Indices of a bipartite network at the link level

extinction

Simulates extinction of a species from a bipartite network

endpoint

Computes end-point degrees for a bipartite network

bipartite-package

Analysis of bipartite ecological webs

betalinkr

Calculate network dissimilarity (beta diversity) and its components

listModuleInformation

listModuleInformation

closeness_w

Closeness centrality in a weighted network

compart

Detects compartments

nestedness

Calculates nestedness temperature of presence/absence matrices

nestedcontribution

Calculates the per-species contribution to nestedness (z-score relative to null model)

computeModules

computeModules

clustering_tm

Redefined clustering coefficient for two-mode networks

elberling1999

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

empty

Deletes empty rows and columns from a matrix.

genweb

Generate a random bipartite web

grouplevel

Analysis of bipartite webs at the level of each of the two levels (groups) of the network

nest.smdm

Computes nestedness of a matrix as WNODA (and NODF and WNODF)

ollerton2003

ollerton2003

discrepancy

Calculates discrepancy of a matrix

plotModuleWeb

plotModuleWeb

nodespec

Calculates the node-based specialisation index

small1976

A flower visitation network from a peat bog in Ottawa, Canada

projecting_tm

Projecting binary and weighted two-mode networks onto weighted one-mode networks.

schemske1978

A flower visitation network from Urbana, IL, USA

sortmatrix

Organise matrix by topology

printoutModuleInformation

printoutModuleInformation

distance_w

Distance in a weighted network

betweenness_w

Betweenness centrality in a weighted network

npartite

Computes indices for a masked-one-mode network

vazmasc

A pollination network.

kato1990

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

vazmasnc

A pollination network.

second.extinct

Secondary extinctions in bipartite networks

vaznull

Null model with constrained connectance and moderately constrained marginal totals

specieslevel

Calculate various indices for network properties at the species level

nested

Calculates any of several measures of nestedness

memmott1999

Flower visitation network from a meadow near Bristol, UK

olesen2002aigrettes

A flower visitation network from the Azores

sortweb

Function to sort bipartite webs

inouye1988

A pollination network from the Snowy Mountains of New South Wales, Australia

junker2013

Flower visitation network

vazquec

A pollination network.

nullmodel

Generates null models for network analysis

togetherness

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

czvalues

Computes c and z for network modules

vazarr

A pollination network.

kevan1970

A pollination network from Northern Ellesmere Island, Canada

vazquenc

A pollination network.

motten1982

A spring flower visitation network from North Carolina, USA

wine

Weighted-Interaction Nestedness Estimator

mgen

Generate simulated network according to a given probability matrix

mosquin1967

Flower visitation network from Melville Island, Northwest Territories, Canada

null.distr

Null model based on fitted marginal distribution

web2edges

Conversion of a network matrix into a (weighted) edge list

vazquez.example

Examples for some analyses

webs2array

Puts two or more webs into one array of webs

decimalr2dtable

Generates matrix with same marginal totals for non-negative decimal values

r2dexternal

Generates null models for network analysis by considering external abundances

networklevel

Analysis of bipartite webs at the level of the entire network

plotmatrix

Plot a matrix organised by topology

moduleWeb-class

Class "moduleWeb"

null.t.test

Compares observed pattern to random webs.

olesen2002flores

Another flower visitation network from the Azores

nestedrank

Calculates the rank of a species in a matrix sorted for maximum nestedness

DIRT_LPA_wb_plus

Functions "LPA_wb_plus" and "DIRT_LPA_wb_plus"

plotPAC

Function to draw a circular plot to visualise potential apparent competition (PAC)

plotweb2

Visualize a tripartite interaction matrix (e.g. a tritrophic foodweb)

olito2015

A pollination network from the Canadian Rockies

robustness

Robustness to species extinctions

shuffle.web

Shuffle web entries

strength

Computes species strength according to either of two definitions

plotweb

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

symmetrise_w

Symmetrise_w

swap.web

Creates null model for bipartite networks

slope.bipartite

Slope of extinction simulation

vazllao

A pollination network.

vazcer

A pollination network.

tnet_igraph

Exports a tnet network to an igraph object

visweb

Plotting function to visualize a bipartite food web

versionlog

Log of bipartite versions and changes