{"id":22155891,"url":"https://github.com/citiususc/veryfasttree-python","last_synced_at":"2025-03-24T14:29:10.252Z","repository":{"id":257580729,"uuid":"813823701","full_name":"citiususc/veryfasttree-python","owner":"citiususc","description":"VeryFastTree Python Bindings","archived":false,"fork":false,"pushed_at":"2024-09-17T11:01:15.000Z","size":22,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"main","last_synced_at":"2025-01-29T19:23:53.058Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"https://github.com/citiususc/veryfasttree","language":"Python","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/citiususc.png","metadata":{"files":{"readme":"README.md","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,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2024-06-11T20:13:10.000Z","updated_at":"2024-09-17T11:02:06.000Z","dependencies_parsed_at":null,"dependency_job_id":"535a45df-cd5d-41b1-9d4b-35b3c222c7b9","html_url":"https://github.com/citiususc/veryfasttree-python","commit_stats":null,"previous_names":["citiususc/veryfasttree-python"],"tags_count":2,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/citiususc%2Fveryfasttree-python","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/citiususc%2Fveryfasttree-python/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/citiususc%2Fveryfasttree-python/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/citiususc%2Fveryfasttree-python/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/citiususc","download_url":"https://codeload.github.com/citiususc/veryfasttree-python/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":245288669,"owners_count":20590939,"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":[],"created_at":"2024-12-02T02:32:44.776Z","updated_at":"2025-03-24T14:29:10.227Z","avatar_url":"https://github.com/citiususc.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"# VeryFastTree Python Bindings\n\nThe VeryFastTree Python Bindings provide an interface to the VeryFastTree software for rapid construction of phylogenetic trees. This package allows you to easily integrate VeryFastTree into your Python workflows, enabling efficient handling of large datasets and quick tree generation.\n\n\n### Installation\n\nTo install the VeryFastTree Python Bindings, you can use pip:\n\n```bash\npip install veryfasttree\n```\n\n**\\*The Linux version requires the OpenMP library (libgomp) to be installed on the system.**\n\n### Usage\n\nHere is a basic example of how to use the VeryFastTree Python Bindings:\n\n```python\nimport veryfasttree\n\n# Define input file\ninput_alignment = 'path/to/your/alignment.fasta'\n\n# Run VeryFastTree\ntree = veryfasttree.run(input_alignment, gtr=True, nt=True)\n\nprint(tree)\n```\n\nThe input to the function can be a file or a text string containing the aligned sequences. The other function arguments \nare the same as the VeryFastTree command-line arguments, omitting the hyphens (-). Flags should be specified with the \nvalue True. \n\n\nVeryFastTree can also be called using the command line interface provided by the Python module:\n\n```bash\npython3 -m veryfasttree [arguments]\n```\n\nThe command-line arguments follow the same convention as the VeryFastTree.\n\n### Contributing\n\nContributions are welcome! Please submit pull requests or issues on the \n[GitHub repository](https://github.com/citiususc/veryfasttree).","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcitiususc%2Fveryfasttree-python","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fcitiususc%2Fveryfasttree-python","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcitiususc%2Fveryfasttree-python/lists"}