{"id":15520057,"url":"https://github.com/clemsciences/alignement_sequence","last_synced_at":"2025-09-14T21:19:45.657Z","repository":{"id":118796814,"uuid":"113991807","full_name":"clemsciences/alignement_sequence","owner":"clemsciences","description":"Code associé à un article dans Linux Magazine n°212 février 2018","archived":false,"fork":false,"pushed_at":"2020-05-13T09:32:38.000Z","size":15,"stargazers_count":3,"open_issues_count":0,"forks_count":1,"subscribers_count":1,"default_branch":"master","last_synced_at":"2025-05-15T08:12:29.686Z","etag":null,"topics":["alignement","alignment","comparative-genomics","comparative-linguistics"],"latest_commit_sha":null,"homepage":"https://connect.ed-diamond.com/GNU-Linux-Magazine/GLMF-212/Programmation-dynamique-et-alignement-de-sequences","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"mit","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/clemsciences.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":"2017-12-12T13:09:40.000Z","updated_at":"2020-05-13T09:32:40.000Z","dependencies_parsed_at":"2023-04-24T21:18:32.963Z","dependency_job_id":null,"html_url":"https://github.com/clemsciences/alignement_sequence","commit_stats":{"total_commits":5,"total_committers":1,"mean_commits":5.0,"dds":0.0,"last_synced_commit":"115a58d80ce27cacab3fd5069615d1723ed04509"},"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/clemsciences/alignement_sequence","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/clemsciences%2Falignement_sequence","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/clemsciences%2Falignement_sequence/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/clemsciences%2Falignement_sequence/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/clemsciences%2Falignement_sequence/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/clemsciences","download_url":"https://codeload.github.com/clemsciences/alignement_sequence/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/clemsciences%2Falignement_sequence/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":275168722,"owners_count":25417184,"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":"2025-09-14T02:00:10.474Z","response_time":75,"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":["alignement","alignment","comparative-genomics","comparative-linguistics"],"created_at":"2024-10-02T10:24:08.904Z","updated_at":"2025-09-14T21:19:45.631Z","avatar_url":"https://github.com/clemsciences.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Alignement de séquences\n\n**[English version here](https://github.com/clemsciences/alignement_sequence/tree/english)**\n\n[alignement_deterministe.py](https://github.com/clemsciences/alignement_sequence/blob/master/alignement_deterministe.py)\n- algorithme de Needleman-Wunsch : alignement global\n- algorithme de Smith-Waterman : alignement local\n- distance de Levenshtein : nombre d'opérations (ajout, suppression, modification) minimal pour passer d'une séquence à une autre\n\n\n[blast.py](https://github.com/clemsciences/alignement_sequence/blob/master/blast.py) : heuristique pour trouver des alignements locaux dans de très longues chaînes\n\n\n[main.py](https://github.com/clemsciences/alignement_sequence/blob/master/main.py) : exemples d'usages des algorithmes présentés\n\n\n[recuperation_donnees.py](https://github.com/clemsciences/alignement_sequence/blob/master/recuperation_donnees.py) : récupérations de mots grâce à nltk \n1. On installe nltk avec # apt-get install nltk\n2. On télécharge le corpus Swadesh avec \n```python\n\u003e\u003e\u003e import nltk\n\u003e\u003e\u003e nltk.download()\n```\n\n\n[utils.py](https://github.com/clemsciences/alignement_sequence/blob/master/utils.py) : quelques fonctions bien utiles mais inclassables\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fclemsciences%2Falignement_sequence","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fclemsciences%2Falignement_sequence","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fclemsciences%2Falignement_sequence/lists"}