CRAN

NST 2.0.3

Normalized Stochasticity Ratio

Released Jun 15, 2019 by Daliang Ning

Dependencies

ape 5.3 vegan 2.5-5 permute 0.9-5

To estimate ecological stochasticity in community assembly. Understanding the community assembly mechanisms controlling biodiversity patterns is a central issue in ecology. Although it is generally accepted that both deterministic and stochastic processes play important roles in community assembly, quantifying their relative importance is challenging. The new index, normalized stochasticity ratio (NST), is to estimate ecological stochasticity, i.e. relative importance of stochastic processes, in community assembly. With functions in this package, NST can be calculated based on different similarity metrics and/or different null model algorithms, as well as some previous indexes, e.g. previous Stochasticity Ratio (ST), Standard Effect Size (SES), modified Raup-Crick metrics (RC). Functions for permutational test and bootstrapping analysis are also included. Previous ST is published by Zhou et al (2014) . NST is modified from ST by considering two alternative situations and normalizing the index to range from 0 to 1 which will be published soon (Ning et al 2019). A modified version, MST, is a special case of NST, used in some recent or upcoming publications, e.g. Liang et al (2019) . SES is calculated as described in Kraft et al (2011) . RC is calculated as reported by Chase et al (2011) and Stegen et al (2013) .

Installation

Maven

This package can be included as a dependency from a Java or Scala project by including the following your project's pom.xml file. Read more about embedding Renjin in JVM-based projects.

<dependencies>
  <dependency>
    <groupId>org.renjin.cran</groupId>
    <artifactId>NST</artifactId>
    <version>2.0.3-b1</version>
  </dependency>
</dependencies>
<repositories>
  <repository>
    <id>bedatadriven</id>
    <name>bedatadriven public repo</name>
    <url>https://nexus.bedatadriven.com/content/groups/public/</url>
  </repository>
</repositories>

View build log

Renjin CLI

If you're using Renjin from the command line, you load this library by invoking:

library('org.renjin.cran:NST')

Test Results

This package was last tested against Renjin 0.9.2726 on Jul 13, 2019.

• NST-package-examples
• ab.assign-examples
• beta.g-examples
• beta.limit-examples
• dist.3col-examples
• match.name-examples
• nst.boot-examples
• nst.panova-examples
• null.models-examples
• tNST-examples
• taxo.null-examples
• tda-examples

Source

View GitHub Mirror

Release History

• 2.0.3