Null model permutation testing

Knowledge graph centered on Null model permutation testing with 70 nodes and 174 connections. Top connected: Rocky Mountain Biological Laboratory, Gothic, Two-form Bumble Bee, Bumble Bees, Buff-tailed Bumble Bee.

Method synopsis

Generation of null models that maintain interaction totals per species while randomizing interaction patterns, followed by permutation tests to assess significance of observed network metrics relative to abundance-based expectations.

Synthesized from method descriptions across 3 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 — Temporal flexibility in the structure of plant–pollinator interaction networks (2020), Oikos. The protocol was originally introduced by Interaction rewiring and the rapid turnover of plant-pollinator networks (2017), Ecology Letters. Implementations in other papers (listed below) may differ.

1. Simulate species extinctions
   Random loss of species from weekly and season-long networks simulated using secondary extinctions approach. Simulations removed species from networks in random order, calculating remaining species when interactions were lost altogether. Each simulation scenario run 100 times for each network and robustness values averaged across runs.
   Quantities: 100 simulation runs per network per extinction scenario, applied to all 45 networksDuration: Computational analysis performed on all constructed networksConditions: Species considered extinct when they lost all interaction partners

Typical Equipment

• computer
• statistical software
• R software

Output Measurements

• niche breadth
• Shannon diversity index
• significance p-values

Papers Using This Protocol (3)

Species Studied With This Protocol

Places Where Used