{"id":20207601,"url":"https://github.com/pietrocinaglia/dante","last_synced_at":"2026-03-19T14:35:05.078Z","repository":{"id":88192970,"uuid":"527503234","full_name":"pietrocinaglia/dante","owner":"pietrocinaglia","description":"DANTE is a software tool for pairwise alignment of dynamic networks. It computes the topological node similarities via temporal embedding.","archived":false,"fork":false,"pushed_at":"2023-08-01T16:37:30.000Z","size":537,"stargazers_count":1,"open_issues_count":0,"forks_count":1,"subscribers_count":3,"default_branch":"main","last_synced_at":"2025-03-03T10:14:37.031Z","etag":null,"topics":["alignment","biological-networks","dynamic-network-embedding","dynamic-networks","embeddings","network-alignment","network-embedding","temporal-networks"],"latest_commit_sha":null,"homepage":"","language":null,"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/pietrocinaglia.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":"2022-08-22T09:50:55.000Z","updated_at":"2023-09-19T12:19:21.000Z","dependencies_parsed_at":null,"dependency_job_id":"eb09a327-7913-47c9-807a-153296a6bcc3","html_url":"https://github.com/pietrocinaglia/dante","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/pietrocinaglia/dante","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/pietrocinaglia%2Fdante","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/pietrocinaglia%2Fdante/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/pietrocinaglia%2Fdante/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/pietrocinaglia%2Fdante/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/pietrocinaglia","download_url":"https://codeload.github.com/pietrocinaglia/dante/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/pietrocinaglia%2Fdante/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":30246724,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-03-08T00:58:18.660Z","status":"online","status_checked_at":"2026-03-08T02:00:06.215Z","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":["alignment","biological-networks","dynamic-network-embedding","dynamic-networks","embeddings","network-alignment","network-embedding","temporal-networks"],"created_at":"2024-11-14T05:30:21.758Z","updated_at":"2026-03-08T05:31:41.848Z","avatar_url":"https://github.com/pietrocinaglia.png","language":null,"funding_links":[],"categories":[],"sub_categories":[],"readme":"## DynAmic Networks alignment based on Temporal Embeddings (DANTE)\n\n\u003ci\u003eDANTE\u003c/i\u003e is a software tool for the alignment of dynamic networks based on temporal embedding.\n\nIt was developed based on the method published on the journal paper titled \u003ci\u003e\"A Method Based on Temporal Embedding for the Pairwise Alignment of Dynamic Networks\"\u003c/i\u003e (reference is reported below).\n\nWe tested \u003ci\u003eDANTE\u003c/i\u003e on macOS Monterey (12.4), with CPU Intel.\n\nThis is an extension of our preliminary prototype (version 1).\n\n### Reference - Cite DANTE (version 2, or DANTEv2)\n\nCinaglia P, Cannataro M. A Method Based on Temporal Embedding for the Pairwise Alignment of Dynamic Networks. Entropy. 2023; 25(4):665. https://doi.org/10.3390/e25040665\n\n#### Full-Text paper (Open-Access, Free PDF)\nhttps://www.mdpi.com/1099-4300/25/4/665\n\n#### Bibtex format:\n\n@Article{dante2023,\u003cbr\u003e\n\u0026nbsp;\u0026nbsp;\u0026nbsp;\u0026nbsp;AUTHOR = {Cinaglia, Pietro and Cannataro, Mario},\u003cbr\u003e\n\u0026nbsp;\u0026nbsp;\u0026nbsp;\u0026nbsp;TITLE = {A Method Based on Temporal Embedding for the Pairwise Alignment of Dynamic Networks},\u003cbr\u003e\n\u0026nbsp;\u0026nbsp;\u0026nbsp;\u0026nbsp;JOURNAL = {Entropy},\u003cbr\u003e\n\u0026nbsp;\u0026nbsp;\u0026nbsp;\u0026nbsp;VOLUME = {25},\u003cbr\u003e\n\u0026nbsp;\u0026nbsp;\u0026nbsp;\u0026nbsp;YEAR = {2023},\u003cbr\u003e\n\u0026nbsp;\u0026nbsp;\u0026nbsp;\u0026nbsp;NUMBER = {4},\u003cbr\u003e\n\u0026nbsp;\u0026nbsp;\u0026nbsp;\u0026nbsp;ARTICLE-NUMBER = {665},\u003cbr\u003e\n\u0026nbsp;\u0026nbsp;\u0026nbsp;\u0026nbsp;URL = {https://www.mdpi.com/1099-4300/25/4/665},\u003cbr\u003e\n\u0026nbsp;\u0026nbsp;\u0026nbsp;\u0026nbsp;ISSN = {1099-4300},\u003cbr\u003e\n\u0026nbsp;\u0026nbsp;\u0026nbsp;\u0026nbsp;DOI = {10.3390/e25040665}\u003cbr\u003e\n}\n\n\u003cbr /\u003e\n\u003cbr /\u003e\n\n### Requirements\n\u003ci\u003eDANTE\u003c/i\u003e needs Python \u003e= 3.9, and the packages listed into 'requirements.txt'. The latter may be installed automatically by using [Python Package Installer (pip)](https://pip.pypa.io/en/stable/):\n\n```\npip3 install -r requirements.txt\n```\n\nor (alias: pip=pip3):\n\n```\npip install -r requirements.txt\n```\n\n\u003cbr /\u003e\n\n### Run the example\nYou may use the dataset included into this repository ('example'), for demonstration purposes only, as follows:\n```\n./DANTE example/dnet1/DN1 example/dnet2/DN2 example_alignment\n```\nThis dataset consists of two dynamic networks (dnet1 and dnet2).\n- dnet1: 10 nodes, 10 time points.\n- dnet2: 20 nodes, 10 time points.\n\nThe command will execute DANTE to produce the alignment ('example_alignment').\n\nSummary:\n- 'example/dnet1': dnet1 (format in DANTE);\n- 'example/dnet2': dnet2 (format in DANTE);\n- 'example/dnet1.dy': dnet1 (format in DynaMAGNA++);\n- 'example/dnet2.dy': dnet2 (format in DynaMAGNA++);\n- 'example/results/DANTE': alignment (dnet1 on dnet2) produced by DANTE;\n- 'example/results/DynaMAGNA++': alignment (dnet1 on dnet2) produced by DynaMAGNA++.\n\n\u003cbr /\u003e\n\n### Help\n\u003ci\u003eDANTE\u003c/i\u003e may be used as shell-command, or through its own Command Line Interface (CLI).\n\nArguments (arg):\n1) Path of Dynamic Network_1 (G) *\n2) Path of Dynamic Network_2 (H) *\n3) Output's filename [Default: output]\n4) (only CLI) Delimiter for data parsing [Default: space]\n\nRun as shell-command: \n```\n./DANTE arg1 arg2 arg3\n```\n\nRun the CLI:\n```\n./DANTE\n```\n\n**Escaping spaces with backslash, in according to Linux/Unix Shell. For instance, /user1/my samples\\s1 becomes /user1/my\\ samples\\s1*\n\nData is structured as edge list, one for each time point. To give an example, dnet1 consisting of 10 time points will have the following files inside a directory of the same name: DN11, DN12, DN13, DN1..., DN110.\n\n\u003cbr /\u003e\n\n### MIT License\n\nCopyright (c) 2023\n\nPermission is hereby granted, free of charge, to any person obtaining a copy\nof this software and associated documentation files (the \"Software\"), to deal\nin the Software without restriction, including without limitation the rights\nto use, copy, modify, merge, publish, distribute, sublicense, and/or sell\ncopies of the Software, and to permit persons to whom the Software is\nfurnished to do so, subject to the following conditions:\n\nThe above copyright notice and this permission notice shall be included in all\ncopies or substantial portions of the Software.\n\nTHE SOFTWARE IS PROVIDED \"AS IS\", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR\nIMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,\nFITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE\nAUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER\nLIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,\nOUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE\nSOFTWARE.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fpietrocinaglia%2Fdante","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fpietrocinaglia%2Fdante","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fpietrocinaglia%2Fdante/lists"}