{"package":"r-phyclust","ecosystem":"conda","latest_version":"0.1_34","description":"Phylogenetic clustering (phyloclustering) is an evolutionary Continuous Time Markov Chain model-based approach to identify population structure from molecular data without assuming linkage equilibrium. The package phyclust (Chen 2011) provides a convenient implementation of phyloclustering for DNA and SNP data, capable of clustering individuals into subpopulations and identifying molecular sequences representative of those subpopulations. It is designed in C for performance, interfaced with R for visualization, and incorporates other popular open source programs including ms (Hudson 2002) <doi:10.1093/bioinformatics/18.2.337>, seq-gen (Rambaut and Grassly 1997) <doi:10.1093/bioinformatics/13.3.235>, Hap-Clustering (Tzeng 2005) <doi:10.1002/gepi.20063> and PAML baseml (Yang 1997, 2007) <doi:10.1093/bioinformatics/13.5.555>, <doi:10.1093/molbev/msm088>, for simulating data, additional analyses, and searching the best tree. See the phyclust website for more information, documentations and examples.","license":"GPL-2.0-or-later","license_risk":"unknown","commercial_use_notes":"verify manually — license not parseable / not declared.","homepage":"https://snoweye.github.io/phyclust/","repository":"","downloads_weekly":224,"health":{"score":49,"risk":"high","breakdown":{"maintenance":10,"popularity":3,"security":25,"maturity":9,"community":2},"deprecated":false,"max_score":100},"vulnerabilities":{"count":0,"critical":0,"high":0,"medium":0,"low":0,"details":[]},"versions":{"latest":"0.1_34","total_count":4,"recent":["0.1_30","0.1_32","0.1_33","0.1_34"]},"metadata":{"deprecated":false,"deprecated_message":null,"maintainers_count":1,"first_published":"2021-06-05 10:50:44.411000+00:00","last_published":"2025-09-19 00:42:07.844000+00:00","dependencies_count":0,"dependencies":[]},"github_stats":null,"bundle":null,"typescript":null,"known_issues":{"bugs_count":0,"bugs_severity":{},"status_breakdown":{},"link":null,"scope":"none"},"historical_compromise":null,"recommendation":{"action":"safe_to_use","issues":[],"use_version":"0.1_34","version_hint":null,"summary":"r-phyclust@0.1_34 is safe to use (health: 49/100)"},"version_scoped":null,"requested_version":null,"_cache":"miss","_response_ms":422,"_powered_by":"depscope.dev — free package intelligence for AI agents","typosquat":{"is_suspected":false},"maintainer_trust":{"available":false},"malicious":{"is_malicious":false},"scorecard":{"available":false},"quality":{"available":false},"version_history_summary":{"total_versions":4,"first_release_age_days":1791,"last_release_days_ago":224,"avg_days_between_releases":597,"release_velocity":"moderate"}}