{"id":20425049,"url":"https://github.com/databio/mira","last_synced_at":"2025-04-12T18:54:22.935Z","repository":{"id":86287788,"uuid":"67827841","full_name":"databio/MIRA","owner":"databio","description":"R package for Methylation-based Inference of Regulatory Activity","archived":false,"fork":false,"pushed_at":"2020-04-09T19:18:46.000Z","size":6860,"stargazers_count":12,"open_issues_count":2,"forks_count":2,"subscribers_count":16,"default_branch":"master","last_synced_at":"2025-03-26T13:11:22.360Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"http://code.databio.org/MIRA","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/databio.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":"2016-09-09T19:51:55.000Z","updated_at":"2025-03-23T20:03:52.000Z","dependencies_parsed_at":"2023-03-13T09:28:31.181Z","dependency_job_id":null,"html_url":"https://github.com/databio/MIRA","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/databio%2FMIRA","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/databio%2FMIRA/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/databio%2FMIRA/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/databio%2FMIRA/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/databio","download_url":"https://codeload.github.com/databio/MIRA/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":248618262,"owners_count":21134200,"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":"2024-11-15T07:12:07.720Z","updated_at":"2025-04-12T18:54:22.916Z","avatar_url":"https://github.com/databio.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# MIRA (Methylation-based Inference of Regulatory Activity)\n[![Build Status](https://travis-ci.org/databio/MIRA.svg?branch=master)](https://travis-ci.org/databio/MIRA)\n\nThe MIRA package aggregates DNA methylation across the genome for instances of a genomic feature like histone ChIP peaks, transcription factor ChIP peaks, or open chromatin regions in order to give a single signature and score for that feature, which may be used to infer regulatory activity.\n\n\n### Installing MIRA\n\nMIRA may be installed from Github:\n\n```{r}\ndevtools::install_github(\"databio/MIRA\")\n```\n\nor locally after downloading/cloning the source code:\n\n```{r}\ninstall.packages(\"path/to/MIRA/directory\", repos=NULL, type=\"source\")\n```\n\n\n### Learning how to use MIRA\n\nA couple of vignettes are included with the package. For an overview of the package see the \"Getting Started\" vignette. A more realistic example of how to use MIRA may be found in the \"BiologicalApplication\" vignette.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdatabio%2Fmira","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fdatabio%2Fmira","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdatabio%2Fmira/lists"}