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Cheddar: analysis and visualisation of ecological communities in R
Author(s) -
Hudson Lawrence N.,
Emerson Rob,
Jenkins Gareth B.,
Layer Katrin,
Ledger Mark E.,
Pichler Doris E.,
Thompson Murray S. A.,
O'Gorman Eoin J.,
Woodward Guy,
Reuman Daniel C.
Publication year - 2013
Publication title -
methods in ecology and evolution
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.425
H-Index - 105
ISSN - 2041-210X
DOI - 10.1111/2041-210x.12005
Subject(s) - bespoke , computer science , visualization , r package , software , data science , implementation , web application , range (aeronautics) , ecology , food web , data visualization , world wide web , data mining , software engineering , trophic level , engineering , biology , computational science , political science , law , programming language , aerospace engineering
Summary 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.