Visualising Bipartite Networks and Calculating Some (Ecological) Indices

as.one.mode | Conversion of a network matrix |

as.tnet | Ensures that networks conform to the tnet stardards |

barrett1987 | Individuals caught in a pollination web in boreal Canada. |

betweenness_w | Betweenness centrality in a weighted network |

bezerra2009 | Individuals observed in a flower-visitation network of... |

bipartite-package | Analysis of bipartite ecological webs |

closeness_w | Closeness centrality in a weighted network |

clustering_tm | Redefined clustering coefficient for two-mode networks |

compart | Detects compartments |

computeModules | Function "computeModules" |

C.score | Calculates the (normalised) mean number of checkerboard... |

czvalues | Computes c and z for network modules |

degreedistr | Fits functions to cumulative degree distributions of both... |

dfun | Calculates standardised specialisation index d' (d prime) for... |

discrepancy | Calculates discrepancy of a matrix |

distance_w | Distance in a weighted network |

elberling1999 | No. of visits in a pollination web of arctic-alpine Sweden |

empty | Deletes empty rows and columns from a matrix. |

endpoint | Computes end-point degrees for a bipartite network |

extinction | Simulates extinction of a species from a bipartite network |

fc | Calculates the functional complementarity for the rows of a... |

frame2webs | Converts a table of observations into a network matrix |

genweb | Generate a random bipartite web |

grouplevel | Analysis of bipartite webs at the level of each of the two... |

H2fun | Specialisation of a bipartite web. |

inouye1988 | A pollination network from the Snowy Mountains of New South... |

junker2013 | Flower visitation network |

kato1990 | No. of individuals caught in a pollination web of a Japanese... |

kevan1970 | A pollination network from Northern Ellesmere Island, Canada |

linklevel | Indices of a bipartite network at the link level |

listModuleInformation | Function "listModuleInformation" |

memmott1999 | Flower visitation network from a meadow near Bristol, UK |

mgen | Generate simulated network according to a given probability... |

modulesLPA | Functions "LPA_wb_plus" and "DIRT_LPA_wb_plus" |

moduleWeb-class | Class "moduleWeb" |

mosquin1967 | Flower visitation network from Melville Island, Northwest... |

motten1982 | A spring flower visitation network from North Carolina, USA |

ND | Normalised degree, betweenness and closeness centrality |

nested | Calculates any of several measures of nestedness |

nestedcontribution | Calculates the per-species contribution to nestedness... |

nestedness | Calculates nestedness temperature of presence/absence... |

nestedrank | Calculates the rank of a species in a matrix sorted for... |

networklevel | Analysis of bipartite webs at the level of the entire network |

nodespec | Calculates the node-based specialisation index |

NOS | Calculates the node overlap and separation according to... |

npartite | Computes indices for a masked-one-mode network |

null.distr | Null model based on fitted marginal distribution |

nullmodel | Generates null models for network analysis |

null.t.test | Compares observed pattern to random webs. |

olesen2002aigrettes | A flower visitation network from the Azores |

olesen2002flores | Another flower visitation network from the Azores |

ollerton2003 | ollerton2003 |

PAC | Potential for Apparent Competition |

PDI | Paired Differences Index |

plotModuleWeb | Function "plotModuleWeb" |

plotPAC | Function to draw a circular plot to visualise potential... |

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

plotweb2 | Visualize a tripartite interaction matrix (e.g. a tritrophic... |

printoutModuleInformation | Function printoutModuleInformation |

projecting_tm | Projecting binary and weighted two-mode networks onto... |

r2dexternal | Generates null models for network analysis by considering... |

robustness | Robustness to species extinctions |

Safariland | A pollination web from Argentina |

schemske1978 | A flower visitation network from Urbana, IL, USA |

second.extinct | Secondary extinctions in bipartite networks |

shuffle.web | Shuffle web entries |

slope.bipartite | Slope of extinction simulation |

small1976 | A flower visitation network from a peat bog in Ottawa, Canada |

sortweb | Function to sort bipartite webs |

specieslevel | Calculate various indices for network properties at the... |

strength | Computes species strength according to either of two... |

swap.web | Creates null model for bipartite networks |

symmetrise_w | Symmetrise_w |

tnet_igraph | Exports a tnet network to an igraph object |

togetherness | Calculates the number of identical co-presences and... |

vazarr | A pollination network. |

vazcer | A pollination network. |

vazllao | A pollination network. |

vazmasc | A pollination network. |

vazmasnc | A pollination network. |

vaznull | Null model with constrained connectance and moderately... |

vazquec | A pollination network. |

vazquenc | A pollination network. |

vazquez.example | Examples for some analyses |

versionlog | Log of bipartite versions and changes |

visweb | Plotting function to visualize a bipartite food web |

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

web2edges | Conversion of a network matrix into a (weighted) edge list |

webs2array | Puts two or more webs into one array of webs |

wine | Weighted-Interaction Nestedness Estimator |

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