PHPackages tripalcultivate/genetics - PHPackages - PHPackages [Skip to content](#main-content)[PHPackages](/)[Directory](/)[Categories](/categories)[Trending](/trending)[Leaderboard](/leaderboard)[Changelog](/changelog)[Analyze](/analyze)[Collections](/collections)[Log in](/login)[Sign up](/register) 1. [Directory](/) 2. / 3. [Utility & Helpers](/categories/utility) 4. / 5. tripalcultivate/genetics ActiveDrupal-module[Utility & Helpers](/categories/utility) tripalcultivate/genetics ======================== A Tripal extension module that provides support for large-scale genotypic data, genetic maps, and QTL with importers, content pages and visualizations. 4.x-dev(2mo ago)10[14 issues](https://github.com/TripalCultivate/TripalCultivate-Genetics/issues)[2 PRs](https://github.com/TripalCultivate/TripalCultivate-Genetics/pulls)GPL-3.0-or-laterPHPPHP ^8.2CI passing Since Nov 8Pushed 1mo ago2 watchersCompare [ Source](https://github.com/TripalCultivate/TripalCultivate-Genetics)[ Packagist](https://packagist.org/packages/tripalcultivate/genetics)[ Docs](https://github.com/TripalCultivate/TripalCultivate-Genetics)[ RSS](/packages/tripalcultivate-genetics/feed)WikiDiscussions 4.x Synced 1mo ago READMEChangelogDependencies (3)Versions (5)Used By (0) Tripal Cultivate: Genetics ========================== [](#tripal-cultivate-genetics) **Developed by the University of Saskatchewan, Pulse Crop Bioinformatics team.** **NOTE: This package will replace the following Tripal v3 modules: [nd\_genotypes](https://github.com/UofS-Pulse-Binfo/nd_genotypes), [genotypes\_loader](https://github.com/UofS-Pulse-Binfo/genotypes_loader), [tripal\_qtl](https://github.com/UofS-Pulse-Binfo/tripal_qtl), [vcf\_filter](https://github.com/UofS-Pulse-Binfo/vcf_filter).** - Provides import and visualization support for genetic maps, markers, sequence variants and QTL - Large-scale genotypic datasets are supported with both: - the power of a relational database for tight integration with germplasm, phenotypic data and with tools across multiple data types - the speed/ease of flat file storage and querying via the Variant Call Format (VCF) - A Genotype Matrix tool for quick visual querying of genotypic differences between germplasm in smaller regions (e.g. QTL or GWAS peak) - Management of metadata for VCF files including a form for researchers to filter and download the results in multiple formats. Citation -------- [](#citation) If you use this module in your Tripal site, please use this citation to reference our work any place where you described your resulting Tripal site. For example, if you publish your site in a journal then this citation should be in the reference section and anywhere functionality provided by this module is discussed in the above text should reference it. > Lacey-Anne Sanderson and Carolyn Caron (2023). TripalCultivate Genetics: Large-scale genetic and genotypic data integration for Tripal. Development Version. University of Saskatchewan, Pulse Crop Research Group, Saskatoon, SK, Canada. Install ------- [](#install) Using composer, add this package to your Drupal site by using the following command in the root of your Drupal site: ``` composer require tripalcultivate/genetics ``` This will download the most recent release in the modules directory. You can see more information in [the Drupal Docs](https://www.drupal.org/docs/develop/using-composer/manage-dependencies). Then you can install it using Drush or the Extensions page on your Drupal site. ``` drush en trpcultivate_genetics ``` Technology Stack ---------------- [](#technology-stack) *See specific version compatibility in the automated testing section below.* - Drupal - Tripal 4.x - PostgreSQL - PHP - Apache2 ### Automated Testing [](#automated-testing) This package is dedicated to a high standard of automated testing. We use PHPUnit for testing and CodeClimate to ensure good test coverage and maintainability. There are more details on [our CodeClimate project page](https://codeclimate.com/github/TripalCultivate/TripalCultivate-Genetics) describing our specific maintainability issues and test coverage. [![MaintainabilityBadge](https://camo.githubusercontent.com/0c1d1da7bb273dec09bb24eb6943a0b341f8d271b454510e8229fc752c9cfd2a/68747470733a2f2f6170692e636f6465636c696d6174652e636f6d2f76312f6261646765732f66646462643036646635653332306630396364392f6d61696e7461696e6162696c697479)](https://camo.githubusercontent.com/0c1d1da7bb273dec09bb24eb6943a0b341f8d271b454510e8229fc752c9cfd2a/68747470733a2f2f6170692e636f6465636c696d6174652e636f6d2f76312f6261646765732f66646462643036646635653332306630396364392f6d61696e7461696e6162696c697479)[![TestCoverageBadge](https://camo.githubusercontent.com/071b6b4cc72951567b0689b20f8b8b607e33146375ac3b8802df0443b5fb66e1/68747470733a2f2f6170692e636f6465636c696d6174652e636f6d2f76312f6261646765732f66646462643036646635653332306630396364392f746573745f636f766572616765)](https://camo.githubusercontent.com/071b6b4cc72951567b0689b20f8b8b607e33146375ac3b8802df0443b5fb66e1/68747470733a2f2f6170692e636f6465636c696d6174652e636f6d2f76312f6261646765732f66646462643036646635653332306630396364392f746573745f636f766572616765) The following compatibility is proven via automated testing workflows. PHP\\Drupal10.5.x-dev10.6.x-dev11.2.x-dev11.3.x-dev**PHP8.2**[![Grid82-105-Badge](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.2_D10_5x.yml/badge.svg)](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.2_D10_5x.yml/badge.svg)[![Grid82-106-Badge](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.2_D10_6x.yml/badge.svg)](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.2_D10_6x.yml/badge.svg)**PHP8.3**[![Grid83-105-Badge](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.3_D10_5x.yml/badge.svg)](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.3_D10_5x.yml/badge.svg)[![Grid83-106-Badge](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.3_D10_6x.yml/badge.svg)](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.3_D10_6x.yml/badge.svg)[![Grid83-112-Badge](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.3_D11_2x.yml/badge.svg)](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.3_D11_2x.yml/badge.svg)[![Grid83-113-Badge](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.3_D11_3x.yml/badge.svg)](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.3_D11_3x.yml/badge.svg)**PHP8.4**[![Grid84-112-Badge](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.4_D11_2x.yml/badge.svg)](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.4_D11_2x.yml/badge.svg)[![Grid84-113-Badge](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.4_D11_3x.yml/badge.svg)](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.4_D11_3x.yml/badge.svg)**PHP8.5**[![Grid85-113-Badge](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.5_D11_3x.yml/badge.svg)](https://github.com/trpcultivate_genetics/trpcultivate_genetics/actions/workflows/MAIN-phpunit-php8.5_D11_3x.yml/badge.svg) ### Health Score 33 — LowBetter than 75% of packages Maintenance70 Regular maintenance activity Popularity2 Limited adoption so far Community11 Small or concentrated contributor base Maturity44 Maturing project, gaining track record Bus Factor1 Top contributor holds 54.2% of commits — single point of failure How is this calculated?**Maintenance (25%)** — Last commit recency, latest release date, and issue-to-star ratio. Uses a 2-year decay window. **Popularity (30%)** — Total and monthly downloads, GitHub stars, and forks. Logarithmic scaling prevents top-heavy scores. **Community (15%)** — Contributors, dependents, forks, watchers, and maintainers. Measures real ecosystem engagement. **Maturity (30%)** — Project age, version count, PHP version support, and release stability. ### Release Activity Cadence Unknown Total 1 Last Release 62d ago ### Community Maintainers ![](https://www.gravatar.com/avatar/4083b15618278dd53dc26863d5c81888ac49acca3850166f8b3e0cac18ff611b?d=identicon)[uofs-pulse-binfo](/maintainers/uofs-pulse-binfo) --- Top Contributors [![carolyncaron](https://avatars.githubusercontent.com/u/7927760?v=4)](https://github.com/carolyncaron "carolyncaron (65 commits)")[![laceysanderson](https://avatars.githubusercontent.com/u/1566301?v=4)](https://github.com/laceysanderson "laceysanderson (37 commits)")[![vidu-wil](https://avatars.githubusercontent.com/u/132868285?v=4)](https://github.com/vidu-wil "vidu-wil (18 commits)") --- Tags drupaldata-importvisualizationtripalbiological-dataqtlgenotypic-dataGWASGenetic Maps ### Embed Badge ![Health badge](/badges/tripalcultivate-genetics/health.svg) ``` [![Health](https://phpackages.com/badges/tripalcultivate-genetics/health.svg)](https://phpackages.com/packages/tripalcultivate-genetics) ``` ### Alternatives [tripal/tripal Tripal is a toolkit to facilitate construction of online genomic, genetic (and other biological) websites. 709.9k9](/packages/tripal-tripal) PHPackages © 2026 [Directory](/)[Categories](/categories)[Trending](/trending)[Changelog](/changelog)[Analyze](/analyze)