Opening the black box: an open-source release of Maxent
Opening the black box: an open-source release of Maxent
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DOI：
10.1111/ecog.03049
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发表时间：
2017-07-01
期刊：
影响因子：
5.9
通讯作者：
Blair, Mary E.
中科院分区：
文献类型：
--
作者：
Phillips, Steven J.;Anderson, Robert P.;Blair, Mary E.
该软件注释宣布了最大的开源版本的新开源版本，用于从事件记录和环境数据中对物种分布进行建模，并描述了一个新的R软件包，用于拟合此类模型。新版本（版本3.4.0）将由美国自然历史博物馆以及未来版本在线托管。它包含小的功能变化，最著名的是使用互补对数（cloglog）变换以产生发生概率的估计值。 Cloglog转换源自最近出版的Maxent作为不均匀的泊松过程（IPP）的解释，这使其具有比默认替代的逻辑转换更强的理论理由。此外，新的R软件包MaxNet使用GLMNET软件包适合正规通用线性模型的Maxent模型。我们讨论了IPP公式在模型输入和输出方面的含义，将事件记录视为点而不是网格单元，并将指数最大模型（原始输出）解释为相对丰度的估计。有了这两个开源开发，我们邀请其他人自由使用并为该软件做出贡献。
This software note announces a new open-source release of the Maxent software for modeling species distributions from occurrence records and environmental data, and describes a new R package for fitting such models. The new release (ver. 3.4.0) will be hosted online by the American Museum of Natural History, along with future versions. It contains small functional changes, most notably use of a complementary log-log (cloglog) transform to produce an estimate of occurrence probability. The cloglog transform derives from the recently-published interpretation of Maxent as an inhomogeneous Poisson process (IPP), giving it a stronger theoretical justification than the logistic transform which it replaces by default. In addition, the new R package, maxnet, fits Maxent models using the glmnet package for regularized generalized linear models. We discuss the implications of the IPP formulation in terms of model inputs and outputs, treating occurrence records as points rather than grid cells and interpreting the exponential Maxent model (raw output) as as an estimate of relative abundance. With these two open-source developments, we invite others to freely use and contribute to the software.