{"id":28321634,"url":"https://github.com/felixernst/rnamodr.ribomethseq","last_synced_at":"2025-08-23T17:45:48.961Z","repository":{"id":73649330,"uuid":"152314904","full_name":"FelixErnst/RNAmodR.RiboMethSeq","owner":"FelixErnst","description":":package: RNAmodR.RiboMethSeq: detection of 2'-O methylations by RiboMethSeq","archived":false,"fork":false,"pushed_at":"2024-03-26T21:06:54.000Z","size":10948,"stargazers_count":1,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"devel","last_synced_at":"2025-07-21T00:30:16.945Z","etag":null,"topics":["bioconductor","modifications","r","ribomethseq","rna","rnamodr"],"latest_commit_sha":null,"homepage":"https://doi.org/doi:10.18129/B9.bioc.RNAmodR.RiboMethSeq","language":"R","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/FelixErnst.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}},"created_at":"2018-10-09T20:14:15.000Z","updated_at":"2023-08-18T08:49:20.000Z","dependencies_parsed_at":null,"dependency_job_id":"ccf8ea2a-3d57-4761-88f6-c47526aa9e72","html_url":"https://github.com/FelixErnst/RNAmodR.RiboMethSeq","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/FelixErnst/RNAmodR.RiboMethSeq","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/FelixErnst%2FRNAmodR.RiboMethSeq","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/FelixErnst%2FRNAmodR.RiboMethSeq/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/FelixErnst%2FRNAmodR.RiboMethSeq/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/FelixErnst%2FRNAmodR.RiboMethSeq/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/FelixErnst","download_url":"https://codeload.github.com/FelixErnst/RNAmodR.RiboMethSeq/tar.gz/refs/heads/devel","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/FelixErnst%2FRNAmodR.RiboMethSeq/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":271760485,"owners_count":24816425,"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":"2025-08-23T02:00:09.327Z","response_time":69,"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":["bioconductor","modifications","r","ribomethseq","rna","rnamodr"],"created_at":"2025-05-25T12:15:12.750Z","updated_at":"2025-08-23T17:45:48.892Z","avatar_url":"https://github.com/FelixErnst.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# RNAmodR.RiboMethSeq [![Build Status](https://travis-ci.com/FelixErnst/RNAmodR.RiboMethSeq.svg?branch=master)](https://travis-ci.com/FelixErnst/RNAmodR.RiboMethSeq) [![codecov](https://codecov.io/gh/FelixErnst/RNAmodR.RiboMethSeq/branch/master/graph/badge.svg)](https://codecov.io/gh/FelixErnst/RNAmodR.RiboMethSeq)\n\n`RNAmodR.RiboMethSeq` uses classes and workflows from `RNAmodR` to detect 2'-O\nmethylations from RiboMethSeq data.\n\nThe vignette from the `RNAmodR.RiboMethSeq` package provides details on the\nspecific analysis of RiboMethSeq data. Have a look at the vignette from the\n`RNAmodR` package for a general description on the provided workflows.\n\n# Installation\n\nThe current version of the RNAmodR.RiboMethSeq package is available from \nBioconductor.\n\n```\nif (!requireNamespace(\"BiocManager\", quietly = TRUE))\n    install.packages(\"BiocManager\")\n\n# The following initializes usage of Bioc devel\nBiocManager::install(\"RNAmodR.RiboMethSeq\")\nlibrary(RNAmodR.RiboMethSeq)\n```\n\n# Literature\n\n- Birkedal U, Christensen-Dalsgaard M, Krogh N, Sabarinathan R, Gorodkin J,\nNielsen H (2015): \"Profiling of ribose methylations in RNA by high-throughput\nsequencing.\" Angewandte Chemie (International ed. in English) 54 (2),\nP. 451–455. DOI: \n[10.1002/anie.201408362](https://doi.org/10.1002/anie.201408362).\n\n- Marchand V, Ayadi L, El Hajj A, Blanloeil-Oillo F, Helm M, Motorin Y\n(2017): \"High-Throughput Mapping of 2'-O-Me Residues in RNA Using\nNext-Generation Sequencing (Illumina RiboMethSeq Protocol).\" Methods in\nmolecular biology (Clifton, N.J.) 1562, P. 171–187. DOI:\n[10.1007/978-1-4939-6807-7_12](https://doi.org/10.1007/978-1-4939-6807-7_12).\n\n- Galvanin A, Ayadi L, Helm M, Motorin Y, Marchand V (2017): \"Mapping and\nQuantification of tRNA 2'-O-Methylation by RiboMethSeq\". Wajapeyee N., Gupta\nR. (eds) Epitranscriptomics. Methods in Molecular Biology (Humana Press,\nNew York, NY) 1870, P. 273-295. DOI:\n[10.1007/978-1-4939-8808-2_21](https://doi.org/10.1007/978-1-4939-8808-2_21).\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ffelixernst%2Frnamodr.ribomethseq","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Ffelixernst%2Frnamodr.ribomethseq","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ffelixernst%2Frnamodr.ribomethseq/lists"}