Cheddar: Analysis and visualisation of ecological communities in R

Research output: Contribution to journalArticlepeer-review


  • Lawrence N. Hudson
  • Rob Emerson
  • Gareth B. Jenkins
  • Katrin Layer
  • Doris E. Pichler
  • Murray S A Thompson
  • Eoin J. O'Gorman
  • Guy Woodward
  • Daniel C. Reuman

Colleges, School and Institutes

External organisations

  • Imperial College London
  • School of Biological and Chemical Sciences Queen Mary University of London
  • The Natural History Museum, London
  • Aaron Diamond AIDS Research Center, Rockefeller University, New York, New York, United States of America.


There has been a lack of software available to ecologists for the management, visualisation and analysis of ecological community and food web data. Researchers have been forced to implement their own data formats and software, often from scratch, resulting in duplicated effort and bespoke solutions that are difficult to apply to future analyses and comparative studies. We introduce Cheddar - an R package that provides standard, transparent implementations of a wide range of food web and community-level analyses and plots, focussing on ecological network data that are augmented with estimates of body mass and/or numerical abundance. The package allows analysis of individual communities, as well as collections of communities, allowing examination of changes in structure through time, across environmental gradients, or due to experimental manipulations. Several commonly analysed food web data sets are included and used in worked examples. This is the first time these important features have been combined in a single package that helps improve research efficiency and serves as a unified framework for future development.


Original languageEnglish
Pages (from-to)99-104
Number of pages6
JournalMethods in Ecology and Evolution
Issue number1
Publication statusPublished - 1 Jan 2013


  • Allometry, Body mass, Ecological network, Food chain, Food web, Mass-abundance, Predator-prey, Resource-consumer, Trophic height, Trophic level