{"id":32200434,"url":"https://github.com/illustratien/toolstability","last_synced_at":"2025-10-22T03:48:12.344Z","repository":{"id":56934242,"uuid":"203346020","full_name":"Illustratien/toolStability","owner":"Illustratien","description":"r package for calculating stability indices","archived":false,"fork":false,"pushed_at":"2025-07-23T14:13:56.000Z","size":3999,"stargazers_count":1,"open_issues_count":0,"forks_count":0,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-10-22T03:48:11.429Z","etag":null,"topics":["analysis-package","r","reproducible-research","stability"],"latest_commit_sha":null,"homepage":"https://illustratien.github.io/toolStability/","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/Illustratien.png","metadata":{"files":{"readme":"README.Rmd","changelog":"NEWS.md","contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null,"notice":null,"maintainers":null,"copyright":null,"agents":null,"dco":null,"cla":null}},"created_at":"2019-08-20T09:40:38.000Z","updated_at":"2025-05-15T12:45:43.000Z","dependencies_parsed_at":"2025-09-08T15:56:30.551Z","dependency_job_id":"87fd8fca-b1bc-4d9c-94ef-98804f334807","html_url":"https://github.com/Illustratien/toolStability","commit_stats":{"total_commits":201,"total_committers":6,"mean_commits":33.5,"dds":0.3383084577114428,"last_synced_commit":"8cd43666f1a644b1f38b2a5c92d7696dbb1bfc94"},"previous_names":[],"tags_count":3,"template":false,"template_full_name":null,"purl":"pkg:github/Illustratien/toolStability","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Illustratien%2FtoolStability","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Illustratien%2FtoolStability/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Illustratien%2FtoolStability/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Illustratien%2FtoolStability/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/Illustratien","download_url":"https://codeload.github.com/Illustratien/toolStability/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Illustratien%2FtoolStability/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":280376535,"owners_count":26320276,"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","status":"online","status_checked_at":"2025-10-22T02:00:06.515Z","response_time":63,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"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":["analysis-package","r","reproducible-research","stability"],"created_at":"2025-10-22T03:48:09.716Z","updated_at":"2025-10-22T03:48:12.339Z","avatar_url":"https://github.com/Illustratien.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"---\noutput: rmarkdown::github_document\nalways_allow_html: true\n---\n\u003c!-- README.md is generated from README.Rmd. Please edit that file --\u003e\n\n```{r, echo = FALSE}\nknitr::opts_chunk$set(\n  collapse = TRUE,\n  comment = \"\",\n  fig.path = \"inst/extdata/\"\n)\n```\n\n## `toolStability`: Tool for Stability Indices Calculation  \u003cimg src=\"https://raw.githubusercontent.com/Illustratien/toolStability/master/inst/extdata/toolStability.png\" align=\"right\" alt=\"logo\" width=\"200\" height = \"200\" style = \"padding: 10px; border: none; float: right;\"\u003e\n\n```{r,echo = FALSE, message = FALSE}\nsuppressWarnings(devtools::load_all(\".\"))\nwholetext \u003c-  packageDescription(\"toolStability\", fields = \"Description\")\nSection\u003c- strsplit(wholetext,\"This R\")\ntext1 \u003c- Section[[1]][1]\ntext2 \u003c- unlist(strsplit(paste0(\"This R\",Section[[1]][2]),\"\\n\"))\n```\n\n###### License: [GPL-3](https://www.r-project.org/Licenses/)\n\u003c!-- Version : [`r getNamespaceVersion(\"toolStability\")`](https://illustratien.github.io/toolStability/articles/toolStability.html#version-history); --\u003e\n\n##### *Wang, T-C. and Chen, T-W.*\n\n\u003c!-- badges: start --\u003e\n[![citation](https://img.shields.io/badge/Publication-Wang_et_al_2023-20639b)](https://link.springer.com/article/10.1007/s00122-023-04264-7)\n[![citation](https://img.shields.io/badge/Publication-Wang_et_al_2025-darkred)](https://www.nature.com/articles/s41597-024-04332-7)\n\n[![Website - pkgdown](https://img.shields.io/badge/website-githubpage-green)](https://Illustratien.github.io/toolStability/)\n[![DOI](https://zenodo.org/badge/203346020.svg)](https://zenodo.org/badge/latestdoi/203346020)\n[![minimal R version](https://img.shields.io/badge/R\u003e%3D-3.5.0-6666ff.svg?logo=R)](https://cran.r-project.org/)\n\u003c!-- [![License: GPL v3](https://img.shields.io/badge/License-GPL%20v3-blue.svg)](https://www.gnu.org/licenses/gpl-3.0) --\u003e\n\u003c!-- [![CRAN_Status_Badge](https://www.r-pkg.org/badges/version-last-release/toolStability)](https://cran.r-project.org/package=toolStability) --\u003e\n\n\u003c!-- # ```{r, results='asis', echo=FALSE} --\u003e\n\u003c!-- # dver \u003c- ifelse(test = gsub(\"(.\\\\.)(\\\\d+)(\\\\..)\", \"\", getNamespaceVersion(\"toolStability\")) != \"\", --\u003e\n\u003c!-- #                yes = getNamespaceVersion(\"toolStability\"), --\u003e\n\u003c!-- #                no = gsub(\"Version:\\\\s*\", \"\", readLines(paste0(\"https://raw.githubusercontent.com/\", \"Illustratien/toolStability\", \"/master/DESCRIPTION\"))[grep(\"Version:\", readLines(paste0(\"https://raw.githubusercontent.com/\", \"Illustratien/toolStability\", \"/master/DESCRIPTION\")))])) --\u003e\n\u003c!-- #  --\u003e\n\u003c!-- # # cat(paste(\"[![develVersion](https://img.shields.io/badge/devel%20version-\", dver, \"-orange.svg)](https://github.com/Illustratien/toolStability)\", sep = \"\")) --\u003e\n\u003c!-- # ``` --\u003e\n[![Github Code Size](https://img.shields.io/github/languages/code-size/Illustratien/toolStability.svg)](https://github.com/Illustratien/toolStability)\n[![Codecov test coverage](https://codecov.io/gh/Illustratien/toolStability/branch/master/graph/badge.svg)](https://app.codecov.io/gh/Illustratien/toolStability?branch=master)\n[![R-CMD-check](https://github.com/Illustratien/toolStability/workflows/R-CMD-check/badge.svg)](https://github.com/Illustratien/toolStability/actions)\n\u003c!-- [![Last-changedate](https://img.shields.io/badge/last%20change-`r gsub('-', '--', Sys.Date())`-yellowgreen.svg)](https://github.com/Illustratien/toolStability/commits/master) --\u003e\n\n\n\u003c!-- [![.](https://raw.githubusercontent.com/vitr/google-analytics-beacon/master/static/badge-flat.gif)](https://github.com/Illustratien/google-analytics-beacon) --\u003e\n\u003c!-- [![rstudio mirror downloads](https://cranlogs.r-pkg.org/badges/grand-total/toolStability?color=green)](https://CRAN.R-project.org/package=toolStability) --\u003e\n\n\u003c!-- badges: end --\u003e\n\n## Description\n\u003c!-- `r packageDescription(\"toolStability\", fields = \"Description\")` --\u003e\n\u003c!-- `r gsub(\"\\\\n\", \"  \", packageDescription(\"toolStability\", fields = \"Description\"))` --\u003e\n`r text1` `r \"There are 11 stability indices in this package.\"`\n\n`r text2[1]`\n`r text2[2]`\n`r text2[3]`\n\n`r text2[4]`\n`r text2[5]`\n`r text2[6]`\n\n\u003c!-- `r text2[7]``r \" (see tutorial for detailed information)\"` --\u003e\n\n\u003c!-- `r text2[8]` --\u003e\n\n\u003c!-- `r text2[9]` --\u003e\n\n\u003c!-- `r text2[10]` --\u003e\n\n\u003c!-- `r text2[11]` --\u003e\n\n\u003c!-- `r text2[12]`  --\u003e\n\n\u003c!-- `r text2[13]` --\u003e\n\n\u003c!-- `r text2[14]` `r \" https://www.jstor.org/stable/2531698\"` --\u003e\n\n\u003c!-- `r text2[15]`  --\u003e\n\n\u003c!-- `r text2[16]` `r \" https://www.nature.com/articles/hdy197287\"` --\u003e\n\n\u003c!-- `r text2[17]` --\u003e\n\n\u003c!-- `r text2[18]` --\u003e\n## Installation\nThe package can be installed from CRAN as follows:\n\n```{r, eval=FALSE}\ninstall.packages('toolStability', dependencies=TRUE)\n```\n\nThe development version can be installed from github as follows:\n\n```{r, eval=FALSE}\nif (!require('devtools')) install.packages('devtools')\ndevtools::install_github(\"Illustratien/toolStability\")\n# or\nif (!require('remotes')) install.packages('remotes')\nremotes::install_github(\"Illustratien/toolStability\")\n```\n\n## Tutorial\nThere are 11 stability indices in this package. A detailed tutorial with examples and references:\n [click here](https://illustratien.github.io/toolStability/articles/toolStability.html).\n\n## What's new\nTo know whats new in this version type:\n\n```{r, eval=FALSE}\nnews(package='toolStability')\n```\n\n## Links\n[Main publication on TAAG](https://link.springer.com/article/10.1007/s00122-023-04264-7)\n\n[Main publication analysis and visualization pipeline](https://github.com/Illustratien/Wang_2023_TAAG)\n\n[Dataset documentation on Zenodo](https://doi.org/10.5281/zenodo.4729636)\n\n[Package documentation on Zenodo](https://doi.org/10.5281/zenodo.5804212)\n\n[CRAN page](https://cran.r-project.org/package=toolStability)\n\n\n## Citing `toolStability`\nTo cite the methods in the package please use:\n\n```{r, eval = FALSE}\nWang, TC., Casadebaig, P. \u0026 Chen, TW. More than 1000 genotypes are required to derive robust relationships between yield, yield stability and physiological parameters: a computational study on wheat crop. Theor Appl Genet 136, 34 (2023). https://doi.org/10.1007/s00122-023-04264-7\n```\n\n\u003c!-- # ```{r, echo = FALSE} --\u003e\n\u003c!-- # detach(\"package:toolStability\", unload=TRUE) --\u003e\n\u003c!-- # suppressPackageStartupMessages(library(toolStability)) --\u003e\n\u003c!-- # cit \u003c- citation(\"toolStability\") --\u003e\n\u003c!-- # yr \u003c- format(Sys.Date(), \"%Y\") --\u003e\n\u003c!-- # cit[1]$year \u003c- yr --\u003e\n\u003c!-- # oc \u003c- class(cit) --\u003e\n\u003c!-- #  --\u003e\n\u003c!-- # cit \u003c- unclass(cit) --\u003e\n\u003c!-- # attr(cit[[1]],\"textVersion\") \u003c- gsub(\"\\\\(\\\\)\", --\u003e\n\u003c!-- #                                      paste(\"\\\\(\", yr, \"\\\\)\", sep = \"\"), --\u003e\n\u003c!-- #                                      attr(cit[[1]],\"textVersion\")) --\u003e\n\u003c!-- # class(cit) \u003c- oc --\u003e\n\u003c!-- # cit --\u003e\n\u003c!-- ``` --\u003e\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fillustratien%2Ftoolstability","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fillustratien%2Ftoolstability","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fillustratien%2Ftoolstability/lists"}