{"id":17596235,"url":"https://github.com/lamm-mit/collagentransformer","last_synced_at":"2025-04-13T09:24:31.198Z","repository":{"id":153541497,"uuid":"533423462","full_name":"lamm-mit/CollagenTransformer","owner":"lamm-mit","description":"CollagenTransformer: End-to-End Transformer Model to Predict Thermal Stability of Collagen Triple Helices Using an NLP Approach","archived":false,"fork":false,"pushed_at":"2023-04-06T08:49:00.000Z","size":246,"stargazers_count":9,"open_issues_count":2,"forks_count":3,"subscribers_count":1,"default_branch":"main","last_synced_at":"2025-03-27T01:01:33.941Z","etag":null,"topics":["learning","machine","nlp","protein"],"latest_commit_sha":null,"homepage":"","language":"Jupyter Notebook","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/lamm-mit.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"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":"2022-09-06T17:03:23.000Z","updated_at":"2025-02-11T09:26:58.000Z","dependencies_parsed_at":"2023-05-19T04:15:12.654Z","dependency_job_id":null,"html_url":"https://github.com/lamm-mit/CollagenTransformer","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/lamm-mit%2FCollagenTransformer","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/lamm-mit%2FCollagenTransformer/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/lamm-mit%2FCollagenTransformer/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/lamm-mit%2FCollagenTransformer/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/lamm-mit","download_url":"https://codeload.github.com/lamm-mit/CollagenTransformer/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":248689828,"owners_count":21146010,"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":["learning","machine","nlp","protein"],"created_at":"2024-10-22T08:24:30.523Z","updated_at":"2025-04-13T09:24:31.127Z","avatar_url":"https://github.com/lamm-mit.png","language":"Jupyter Notebook","funding_links":[],"categories":[],"sub_categories":[],"readme":"# CollagenTransformer\n\n![image](https://user-images.githubusercontent.com/101393859/192001862-cab20dbb-2829-4614-845c-accccae55c44.png)\n\nOriginal paper: \n\nCollagenTransformer: End-to-End Transformer Model to Predict Thermal Stability of Collagen Triple Helices Using an NLP Approach\nAuthors: Eesha Khare, Constancio Gonzalez-Obeso, David L. Kaplan, Markus J. Buehler\nmbuehler@mit.edu \n\nACS Biomaterials Science \u0026 Engineering\nhttps://pubs.acs.org/doi/full/10.1021/acsbiomaterials.2c00737 \n\n## This repository includes two pretrained models\n\nBERT-based transformer model: https://github.com/lamm-mit/CollagenTransformer/blob/main/CollagenTransformer_ProtBERT_Inference.ipynb\n\nSmall transformer model: https://github.com/lamm-mit/CollagenTransformer/blob/main/CollagenTransformer_SmallTransformer_Inference.ipynb \n\n## Training and inference\n\nBERT-based transformer model: https://github.com/lamm-mit/CollagenTransformer/blob/main/CollagenTransformer_ProtBERT_training%20and%20inference.ipynb\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Flamm-mit%2Fcollagentransformer","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Flamm-mit%2Fcollagentransformer","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Flamm-mit%2Fcollagentransformer/lists"}