{"id":16730859,"url":"https://github.com/dillondaudert/proteindatasets","last_synced_at":"2025-04-10T11:13:37.973Z","repository":{"id":89307545,"uuid":"126056232","full_name":"dillondaudert/proteindatasets","owner":"dillondaudert","description":"Creating and manipulating various protein sequence-structure datasets using Python, Julia, and other tools.","archived":false,"fork":false,"pushed_at":"2018-09-01T22:54:17.000Z","size":141,"stargazers_count":6,"open_issues_count":0,"forks_count":4,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-03-24T10:06:25.492Z","etag":null,"topics":["bioinformatics","biopython","blast","dataset","dssp","fasta","julia","jupyter","jupyter-notebook","pandas","protein","psiblast","python3","secondary","structure","tensorflow","uniref50"],"latest_commit_sha":null,"homepage":"","language":"Jupyter Notebook","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/dillondaudert.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}},"created_at":"2018-03-20T17:23:31.000Z","updated_at":"2024-04-09T12:41:24.000Z","dependencies_parsed_at":"2023-07-18T16:30:28.798Z","dependency_job_id":null,"html_url":"https://github.com/dillondaudert/proteindatasets","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/dillondaudert%2Fproteindatasets","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dillondaudert%2Fproteindatasets/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dillondaudert%2Fproteindatasets/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dillondaudert%2Fproteindatasets/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/dillondaudert","download_url":"https://codeload.github.com/dillondaudert/proteindatasets/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":248208567,"owners_count":21065203,"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":["bioinformatics","biopython","blast","dataset","dssp","fasta","julia","jupyter","jupyter-notebook","pandas","protein","psiblast","python3","secondary","structure","tensorflow","uniref50"],"created_at":"2024-10-12T23:35:02.896Z","updated_at":"2025-04-10T11:13:37.956Z","avatar_url":"https://github.com/dillondaudert.png","language":"Jupyter Notebook","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Protein sequence and structure datasets\n\nThis repo contains scripts for creating various protein sequence and structure\ndatasets, as well as some guides for how to use them. \n\n## Contents\n\n### proteinfeatures\nProtein amino acid features.\n\n### cpdb\nWorking with the cullPDB dataset created in [Zhou \u0026 Troyanskaya, \n2014](https://arxiv.org/abs/1403.1347).\n\n### cpdb2\nCreating a new protein sequence-structure dataset following the methods used for\nthe cullPDB dataset, referred to as cpdb2.\n\n### psiblast\nScripts for calling NCBI+ psiblast on large fasta files from BioPython and\nhandling the results using multiprocessing.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdillondaudert%2Fproteindatasets","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fdillondaudert%2Fproteindatasets","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdillondaudert%2Fproteindatasets/lists"}