{"id":18669974,"url":"https://github.com/blahah/tgac-2014-genome-annotation","last_synced_at":"2025-06-21T11:06:53.803Z","repository":{"id":16681790,"uuid":"19437821","full_name":"blahah/TGAC-2014-genome-annotation","owner":"blahah","description":"Course materials for the genome annotation part of the TGAC SeqAhead course 2014","archived":false,"fork":false,"pushed_at":"2014-05-20T13:29:02.000Z","size":1368,"stargazers_count":1,"open_issues_count":1,"forks_count":0,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-05-18T08:35:22.424Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"JavaScript","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"cc0-1.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/blahah.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}},"created_at":"2014-05-04T22:42:24.000Z","updated_at":"2014-06-13T19:38:58.000Z","dependencies_parsed_at":"2022-08-25T19:02:26.159Z","dependency_job_id":null,"html_url":"https://github.com/blahah/TGAC-2014-genome-annotation","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/blahah/TGAC-2014-genome-annotation","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/blahah%2FTGAC-2014-genome-annotation","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/blahah%2FTGAC-2014-genome-annotation/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/blahah%2FTGAC-2014-genome-annotation/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/blahah%2FTGAC-2014-genome-annotation/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/blahah","download_url":"https://codeload.github.com/blahah/TGAC-2014-genome-annotation/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/blahah%2FTGAC-2014-genome-annotation/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":261110613,"owners_count":23111064,"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":"2024-11-07T08:49:21.968Z","updated_at":"2025-06-21T11:06:48.779Z","avatar_url":"https://github.com/blahah.png","language":"JavaScript","funding_links":[],"categories":[],"sub_categories":[],"readme":"TGAC-2014-genome-annotation\n===========================\n\nCourse materials for the genome annotation part of the [TGAC SeqAhead course 2014](http://www.tgac.ac.uk/seqahead-challenges-for-plant-researchers/). Although these materials were written for the course, they should be useful to anyone wanting to learn about plant genome annotation.\n\nBy: Richard Smith-Unna ([Blahah](Https://github.com/Blahah)) \u003crds45@cam.ac.uk\u003e.\n\n### Using these materials\n\nTo download these materials:\n\n```\ngit clone https://github.com/Blahah/TGAC-2014-genome-annotation.git\n```\n\nOr just view them online on Github: https://github.com/Blahah/TGAC-2014-genome-annotation\n\n### Scope\n\nThe course covers both structural and functional annotation of plant genomes. Much of the material is applicable to eukaryotic genome annotation in general, but some content is specific to plants.\n\n### Prerequisites\n\nTo get the most out of this course you should:\n\n- be familiar with genomics and bioinformatics in general (what a genome is, assembly, RNAseq, etc.)\n- be comfortable in Linux\n- be able to run commands in the terminal\n- know how to install software\n\n### Outcomes\n\nBy the end of the course you should:\n\n- understand what structural and functional annotation are\n- be aware of the main theoretical approaches to these tasks\n- know which software to use\n- understand what outputs to generate\n- be able to perform a first-draft annotation of a newly assembled genome\n\n### Resources\n\n- Slides \\[[source](talk) | [view online](https://slides.com/richardsmith-unna/annotating-plant-genomes)\\]\n- [Software list](https://github.com/Blahah/TGAC-2014-genome-annotation/wiki/Software-list)\n- [Exercises](exercises)\n- [Genome annotation pipeline](https://github.com/Blahah/TGAC-2014-genome-annotation/wiki/Annotation-pipeline)\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fblahah%2Ftgac-2014-genome-annotation","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fblahah%2Ftgac-2014-genome-annotation","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fblahah%2Ftgac-2014-genome-annotation/lists"}