Cheddar: analysis and visualisation of ecological communities in R
Cheddar: analysis and visualisation of ecological communities in R
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DOI：
10.1111/2041-210x.12005
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发表时间：
2013-01-01
影响因子：
6.6
通讯作者：
Reuman, Daniel C.
中科院分区：
文献类型：
--
作者：
Hudson, Lawrence N.;Emerson, Rob;Reuman, Daniel C.
生态学家缺乏可用于管理、可视化和分析生态群落和食物网数据的软件。研究人员被迫实施自己的数据格式和软件，往往是从头开始，导致重复的工作和定制的解决方案，难以应用于未来的分析和比较研究。我们介绍Cheddar的R包，提供标准，透明的实现范围广泛的食物网和社区级的分析和情节，重点是生态网络数据，增加了身体质量和/或数量丰富的估计。该软件包允许分析单个社区，以及社区的集合，允许检查结构的变化，通过时间，跨环境梯度，或由于实验操作。几个常见的分析食物网数据集，包括和使用的例子。这是第一次将这些重要功能结合在一个软件包中，有助于提高研究效率，并作为未来开发的统一框架。
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.