{"id":18813213,"url":"https://github.com/nellore/mr1","last_synced_at":"2026-01-25T11:32:27.727Z","repository":{"id":152814471,"uuid":"118038643","full_name":"nellore/mr1","owner":"nellore","description":"explores alternative splicing of MR1 across GTEx","archived":false,"fork":false,"pushed_at":"2018-04-23T23:08:26.000Z","size":7017,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-02-19T23:17:59.914Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"Mathematica","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/nellore.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,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2018-01-18T21:11:47.000Z","updated_at":"2019-05-29T16:11:21.000Z","dependencies_parsed_at":null,"dependency_job_id":"a06d9995-0a31-407e-bd88-34f71ef64309","html_url":"https://github.com/nellore/mr1","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/nellore/mr1","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nellore%2Fmr1","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nellore%2Fmr1/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nellore%2Fmr1/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nellore%2Fmr1/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/nellore","download_url":"https://codeload.github.com/nellore/mr1/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nellore%2Fmr1/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":28752668,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-01-25T10:25:12.305Z","status":"ssl_error","status_checked_at":"2026-01-25T10:25:11.933Z","response_time":113,"last_error":"SSL_connect returned=1 errno=0 peeraddr=140.82.121.5:443 state=error: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"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":[],"created_at":"2024-11-07T23:36:44.734Z","updated_at":"2026-01-25T11:32:27.712Z","avatar_url":"https://github.com/nellore.png","language":"Mathematica","funding_links":[],"categories":[],"sub_categories":[],"readme":"# MR1\nThis repository contains scripts that reproduce a plot of the distributions of _MR1_ exon 4 inclusion-to-skip ratios across GTEx tissues starting [Snaptron](https://academic.oup.com/bioinformatics/article/34/1/114/4101942) queries. Refer to `query_and_generate_table.sh` for how the queries were generated. The _MR1_ transcript NM_001531 includes exon 4 and is distinguished by two junctions, the average of whose coverages we call A; NM_001195000 excludes exon 4 and is distinguished by one junction, whose coverage we call B. `query_and_generate_table.sh` outputs `isoform_ratio_table.tsv`, which lists for each GTEx sample our proxy `A / B` for the isoform ratio as well as corresponding tissue labels. The notebook `plots.nb` generates the final plot `histogramDensityPlot.pdf` from `isoform_ratio_table.tsv`. We ran it with Mathematica 10.4.1 and saved a PDF transcript as `plots.pdf`.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fnellore%2Fmr1","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fnellore%2Fmr1","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fnellore%2Fmr1/lists"}