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vegclust

Package designed to assist analyses of vegetation structure and composition. It is intended to be useful for community ecologists and forest engineers, but the clustering functions can be used in other fields.

https://github.com/emf-creaf/vegclust

Science Score: 39.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ✓
    DOI references
    Found 4 DOI reference(s) in README
  • ○
    Academic publication links
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (15.9%) to scientific vocabulary
Last synced: 10 months ago · JSON representation

Repository

Package designed to assist analyses of vegetation structure and composition. It is intended to be useful for community ecologists and forest engineers, but the clustering functions can be used in other fields.

Basic Info
Statistics
  • Stars: 2
  • Watchers: 0
  • Forks: 2
  • Open Issues: 2
  • Releases: 0
Created about 7 years ago · Last pushed about 1 year ago
Metadata Files
Readme Changelog

README.Rmd 

---
output: github_document
---

```{r setup, echo = FALSE}

knitr::opts_chunk$set(collapse = TRUE, comment = "#>", fig.path = "README-")
```

# Fuzzy clustering of vegetation data vegclust website

  
  [![CRAN\_Status\_Badge](http://www.r-pkg.org/badges/version/vegclust)](https://cran.r-project.org/package=vegclust)
  [![](https://cranlogs.r-pkg.org/badges/vegclust)](https://cran.rstudio.com/web/packages/vegclust/index.html)
  [![R-CMD-check](https://github.com/emf-creaf/vegclust/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/emf-creaf/vegclust/actions/workflows/R-CMD-check.yaml)
  

## Introduction

Package `vegclust` is a package designed to assist analyses of vegetation structure and composition. It is intended to be useful for community ecologists and forest engineers, but the clustering functions can be used in other fields. The package provides functions to:

* Perform fuzzy clustering of vegetation data (De Cáceres et al. 2010).
* Assess ecological community ressemblance on the basis of structure and composition (De Cáceres et al. 2013).

## Package installation

Package vegclust can be found at [CRAN](https://cran.r-project.org/package=vegclust) package repository. In addition, the latest stable `vegclust` R package can be installed from GitHub as follows:

```{r installation, eval = FALSE}
devtools::install_github("emf-creaf/vegclust")
```

Additionally, users can have help to run package functions directly as package vignettes, by forcing their inclusion in installation: 
```{r installation vignettes, eval = FALSE}
devtools::install_github("emf-creaf/vegclust", 
                         build_opts = c("--no-resave-data", "--no-manual"),
                         build_vignettes = TRUE)
```

## Note about 'Community Trajectory Analysis'

Until ver. 2.0, package `vegclust` included functions to conduct Community Trajectory Analysis (CTA). Since ver. 2.0 these functions have been moved to an independent package `ecotraj` available at https://github.com/emf-creaf/ecotraj/ and also in [CRAN](https://cran.r-project.org/package=ecotraj).


## Maintenance

Although not in active development, the R package is maintained by the [*Ecosystem Modelling Facility*](https://emf.creaf.cat) unit at CREAF (in Spain).

## References

+ De Cáceres, M., Font, X., & Oliva, F. 2010. The management of vegetation classifications with fuzzy clustering. Journal of Vegetation Science 21: 1138–1151 (https://doi.org/10.1111/j.1654-1103.2010.01211.x).

+ De Cáceres, M., Legendre, P., & He, F. 2013. Dissimilarity measurements and the size structure of ecological communities (D. Faith, Ed.). Methods in Ecology and Evolution 4: 1167–1177  (https://doi.org/10.1111/2041-210X.12116).

Owner

  • Name: Ecosystem Modelling Facility (CREAF)
  • Login: emf-creaf
  • Kind: organization
  • Email: ecosystemmodellingfacility@creaf.uab.cat

GitHub Events

Total
  • Create event: 1
  • Issues event: 1
  • Release event: 1
  • Issue comment event: 1
  • Push event: 8
  • Pull request event: 1
Last Year
  • Create event: 1
  • Issues event: 1
  • Release event: 1
  • Issue comment event: 1
  • Push event: 8
  • Pull request event: 1

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 134
  • Total Committers: 2
  • Avg Commits per committer: 67.0
  • Development Distribution Score (DDS): 0.03
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Miquel De Cáceres m****s@g****m 130
sturboisa 6****a 4

Issues and Pull Requests

Last synced: over 2 years ago

All Time
  • Total issues: 2
  • Total pull requests: 1
  • Average time to close issues: about 1 month
  • Average time to close pull requests: 6 days
  • Total issue authors: 2
  • Total pull request authors: 1
  • Average comments per issue: 1.0
  • Average comments per pull request: 0.0
  • Merged pull requests: 1
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • bauer-alex (1)
  • adityabandla (1)
Pull Request Authors
  • cbrueffer (1)
  • sturboisa (1)
Top Labels
Issue Labels
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • cran 1,025 last-month
  • Total dependent packages: 3
  • Total dependent repositories: 5
  • Total versions: 11
  • Total maintainers: 1
cran.r-project.org: vegclust

Fuzzy Clustering of Vegetation Data

  • Versions: 11
  • Dependent Packages: 3
  • Dependent Repositories: 5
  • Downloads: 1,025 Last month
Rankings
Dependent packages count: 10.8%
Dependent repos count: 13.4%
Average: 20.4%
Forks count: 21.6%
Downloads: 27.7%
Stargazers count: 28.4%
Maintainers (1)
miquelcaceres@gmail.com
Last synced: 10 months ago

Dependencies

DESCRIPTION cran
  • R >= 3.4.0 depends
  • sp * imports
  • vegan * imports
  • knitr * suggests
  • rmarkdown * suggests
.github/workflows/R-CMD-check.yaml actions
  • actions/checkout v3 composite
  • r-lib/actions/check-r-package v2 composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite
  • r-lib/actions/setup-r-dependencies v2 composite
.github/workflows/collect_metadata.yml actions
  • actions/cache v3 composite
  • actions/checkout v3 composite
  • r-lib/actions/setup-r v2 composite