{"id":27957455,"url":"https://github.com/ps-pat/moonshine.jl","last_synced_at":"2026-01-06T06:26:23.943Z","repository":{"id":290421614,"uuid":"974384938","full_name":"ps-pat/Moonshine.jl","owner":"ps-pat","description":"Ancestral Recombination Graph Modelling \u0026 Inference in Julia","archived":false,"fork":false,"pushed_at":"2025-10-06T18:23:06.000Z","size":2102,"stargazers_count":0,"open_issues_count":1,"forks_count":0,"subscribers_count":1,"default_branch":"master","last_synced_at":"2025-10-06T20:33:27.842Z","etag":null,"topics":["genetics","julia"],"latest_commit_sha":null,"homepage":"https://moonshine.patrickfournier.ca/","language":"Julia","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"gpl-3.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/ps-pat.png","metadata":{"files":{"readme":"Readme.md","changelog":"CHANGELOG.md","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,"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":"2025-04-28T17:37:32.000Z","updated_at":"2025-10-06T18:12:43.000Z","dependencies_parsed_at":"2025-05-07T18:13:07.818Z","dependency_job_id":"25480667-1663-4e81-a455-07d440ef3f6a","html_url":"https://github.com/ps-pat/Moonshine.jl","commit_stats":null,"previous_names":["ps-pat/moonshine.jl"],"tags_count":12,"template":false,"template_full_name":null,"purl":"pkg:github/ps-pat/Moonshine.jl","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ps-pat%2FMoonshine.jl","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ps-pat%2FMoonshine.jl/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ps-pat%2FMoonshine.jl/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ps-pat%2FMoonshine.jl/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/ps-pat","download_url":"https://codeload.github.com/ps-pat/Moonshine.jl/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ps-pat%2FMoonshine.jl/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":278903017,"owners_count":26065786,"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":"2025-10-08T02:00:06.501Z","response_time":56,"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":["genetics","julia"],"created_at":"2025-05-07T18:13:05.246Z","updated_at":"2026-01-06T06:26:23.938Z","avatar_url":"https://github.com/ps-pat.png","language":"Julia","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Moonshine.jl [![Julia](https://img.shields.io/badge/-Julia-9558B2?style=for-the-badge\u0026logo=julia\u0026logoColor=white)](https://julialang.org/)\n[![Project Status: Active – The project has reached a usable state and is being actively developed.](https://www.repostatus.org/badges/latest/active.svg)](https://www.repostatus.org/#active)\n[![Documentation stable](https://img.shields.io/badge/docs-stable-blue.svg)](https://moonshine.patrickfournier.ca/stable/)\n[![Documentation dev](https://img.shields.io/badge/docs-dev-blue.svg)](https://moonshine.patrickfournier.ca/dev/)\n[![Aqua QA](https://raw.githubusercontent.com/JuliaTesting/Aqua.jl/master/badge.svg)](https://github.com/JuliaTesting/Aqua.jl)\n[![DOI](https://zenodo.org/badge/974384938.svg)](https://doi.org/10.5281/zenodo.15558973)\n\n## Overview\nMoonshine.jl is a Julia framework for coalescent modelling oriented towards ancestral recombination graph (ARG) inference. It provides the [`AbstractGenealogy`](https://moonshine.patrickfournier.ca/stable/reference/AbstractGenealogy/#Moonshine.AbstractGenealogy) type which leverages [Graphs.jl](https://github.com/JuliaGraphs/Graphs.jl) for convenient implementation of graph-theoretical models of molecular evolution.\n\n## Installation\nAs usual, from julia's REPL, enter [Pkg mode](https://docs.julialang.org/en/v1/stdlib/REPL/#Pkg-mode) by pressing `]`. Then,\n```julia-repl\npkg\u003e add Moonshine\n```\n\n## Documentation\nThis readme is austere by design. [Full Documentation](https://moonshine.patrickfournier.ca/stable/) as well as a [quickstart tutorial](https://moonshine.patrickfournier.ca/stable/quickstart) are available on a dedicated website. The tutorial is targeted towards experienced as well as first-time julia users.\n\n## Roadmap\n- [ ] Fix unconstrained recombinations-and-recoalescence sampling\n- [ ] Export ARGs as [`succinct tree sequence`](https://tskit.dev/tutorials/what_is.html)\n- [ ] Support for missing data\n- [ ] Implement `SC`-style type 2 recombination events\n### Documentation\n- [ ] Complete API documentation\n- [ ] Add examples\n- [ ] Write guide on how to import data from `VCF` files\n\n## People\n* [Patrick Fournier](https://www.patrickfournier.ca) (p_fournier@hushmail.com)\n* [Fabrice Larribe](http://fabricelarribe.uqam.ca) (larribe.fabrice@uqam.ca)\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fps-pat%2Fmoonshine.jl","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fps-pat%2Fmoonshine.jl","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fps-pat%2Fmoonshine.jl/lists"}