{"id":24913193,"url":"https://github.com/pakillo/exclosures-almoraima","last_synced_at":"2025-03-28T04:41:25.909Z","repository":{"id":67410331,"uuid":"143153398","full_name":"Pakillo/exclosures-Almoraima","owner":"Pakillo","description":"Research compendium for \"Impactos de la herbivoría por ungulados en las comunidades de plantas leñosas del Parque Natural Los Alcornocales\"\" ","archived":false,"fork":false,"pushed_at":"2018-08-01T14:09:50.000Z","size":1977,"stargazers_count":3,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-03-20T16:57:52.546Z","etag":null,"topics":["ecology","r","r-package","reproducible-paper","research-compendium","rmarkdown"],"latest_commit_sha":null,"homepage":null,"language":"TeX","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/Pakillo.png","metadata":{"files":{"readme":"README.Rmd","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null}},"created_at":"2018-08-01T12:31:25.000Z","updated_at":"2019-04-14T11:46:04.000Z","dependencies_parsed_at":"2023-04-16T07:47:11.680Z","dependency_job_id":null,"html_url":"https://github.com/Pakillo/exclosures-Almoraima","commit_stats":{"total_commits":11,"total_committers":1,"mean_commits":11.0,"dds":0.0,"last_synced_commit":"89a340fd131c383e258cd8eb317cb4e6b619a7f1"},"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Pakillo%2Fexclosures-Almoraima","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Pakillo%2Fexclosures-Almoraima/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Pakillo%2Fexclosures-Almoraima/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Pakillo%2Fexclosures-Almoraima/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/Pakillo","download_url":"https://codeload.github.com/Pakillo/exclosures-Almoraima/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":245972629,"owners_count":20702710,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["ecology","r","r-package","reproducible-paper","research-compendium","rmarkdown"],"created_at":"2025-02-02T05:30:01.324Z","updated_at":"2025-03-28T04:41:25.885Z","avatar_url":"https://github.com/Pakillo.png","language":"TeX","funding_links":[],"categories":[],"sub_categories":[],"readme":"---\ntitle: Impactos de la herbivoría por ungulados en las comunidades de plantas leñosas del Parque Natural Los Alcornocales\ndate: \"`r Sys.Date()`\"\noutput: github_document\n---\n\n```{r setup, include = FALSE}\nknitr::opts_chunk$set(\n  collapse = TRUE,\n  comment = \"#\u003e\",\n  fig.path = \"man/figures/README-\",\n  out.width = \"100%\"\n)\n```\n\n[![DOI](https://zenodo.org/badge/143153398.svg)](https://zenodo.org/badge/latestdoi/143153398)\n\nResearch compendium (code and data) used for the following publication:\n\nRodríguez-Sánchez F, Luque-Oliva V \u0026 Jurado V. (2018) Impactos de la herbivoría por ungulados en las comunidades de plantas leñosas del Parque Natural Los Alcornocales. *Almoraima*, en prensa.\n\nThe manuscript, written in Rmarkdown, can be read [here](https://github.com/Pakillo/exclosures-Almoraima/blob/master/manuscript/cercados_Almoraima.md). The submitted Word file is [here](https://github.com/Pakillo/exclosures-Almoraima/blob/master/manuscript/cercados_Almoraima.docx).\n\nCompendium DOI: https://doi.org/10.5281/zenodo.1325107\n\nCITATION: \nRodríguez-Sánchez F, Luque-Oliva V \u0026 Jurado V. (2018) Research compendium for \"Impactos de la herbivoría por ungulados en las comunidades de plantas leñosas del Parque Natural Los Alcornocales\" (Version 1.0.0). Zenodo. https://doi.org/10.5281/zenodo.1325107\n\n\n## Installation\n\nIn order to run the analyses you will need to install the package first:\n\n```{r eval = FALSE}\ndevtools::install_github(\"Pakillo/exclosures-Almoraima\")\n```\n\n\n## Usage\n\nThere is a [`makefile.R`](https://github.com/Pakillo/exclosures-Almoraima/blob/master/makefile.R) that runs each step of the analysis in the appropriate order. \n\n```{r eval=FALSE}\n\nlibrary(exclosures)\n\n\n#### READ AND PRE-PROCESS DATA #####\n\n## Read site info\nread_siteinfo(\"data-raw/sites_info_raw.csv\")\n\n## Read and prepare species info\nread_sppinfo(sppdata = \"data-raw/species_info_raw.csv\")\n\n## Read and process raw cover data\nread_rawcover(rawcover = \"data-raw/exclosures_cover_raw.csv\", tr.length = 25)\n\n## Read and prepare damage data\nread_damage(\"data-raw/exclosure_damage_raw.csv\")\n\n## Prepare dataset\nmake_dataset()\n\n\n#### EXPLORATORY ANALYSIS ####\n\nrmarkdown::render(\"analyses/EDA.Rmd\")\n\n#### MANUSCRIPT ####\n\nrmarkdown::render(\"manuscript/cercados_Almoraima.Rmd\")\n\n```\n\n\n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fpakillo%2Fexclosures-almoraima","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fpakillo%2Fexclosures-almoraima","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fpakillo%2Fexclosures-almoraima/lists"}