Nestedness analysis

Knowledge graph centered on Nestedness analysis with 75 nodes and 204 connections. Top connected: Hummingbird, Bombus, Ligusticum porteri, Bombus terrestris, Bombus appositus.

Method synopsis

Pollen-transport interactions were analyzed using network metrics including weighted connectance, linkage density, weighted nestedness, specialization and robustness calculated with R package bipartite.

Synthesized from method descriptions across 5 papers using this protocol.

Procedure from a recent peer-reviewed implementation

Steps below were extracted from the most recent peer-reviewed implementation of this protocol in the corpus — Flying by night: Comparing nocturnal pollinator networks over time in the Colorado Rocky Mountains (2025), Ecological Entomology. Implementations in other papers (listed below) may differ.

1. Network construction and analysis
   Divided data into three time periods with similar numbers of sampling nights: early-season (ES) with data from seven nights (9 June 2021 to 27 June 2021); mid-season (MS) with data from eight nights (28 June 2021 to 15 July 2021); late-season (LS) with data from eight nights (16 July 2021 to 5 August 2021). Data were pooled by site (Sites 1-3) within early season, mid-season and late season, for total of nine networks. Site 4 was excluded from analysis as it was only measured once. Used R package 'bipartite' version 2.17 to construct pollen-transport networks with N = 1000 iterations to determine significance.
   Quantities: 9 networks total (3 sites × 3 time periods), 1000 iterations for significance testingDuration: Analysis conducted after all field sampling completedConditions: Computational analysis
   Equipment: R statistical software, bipartite package version 2.17

Typical Equipment

• R statistical software
• bipartite package version 2.17

Output Measurements

• weighted connectance
• linkage density
• weighted nestedness
• specialization
• robustness

Papers Using This Protocol (5)

Species Studied With This Protocol