{"id":20081091,"url":"https://github.com/trangdata/phase2.1neurorpackage","last_synced_at":"2026-04-17T18:01:57.606Z","repository":{"id":95112920,"uuid":"330737675","full_name":"trangdata/Phase2.1NeuroRPackage","owner":"trangdata","description":null,"archived":false,"fork":false,"pushed_at":"2021-01-20T17:19:59.000Z","size":33,"stargazers_count":1,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"main","last_synced_at":"2025-01-13T01:34:48.640Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/trangdata.png","metadata":{"files":{"readme":"README.Rmd","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":"2021-01-18T17:21:10.000Z","updated_at":"2022-08-28T09:31:48.000Z","dependencies_parsed_at":"2023-05-26T18:15:14.330Z","dependency_job_id":null,"html_url":"https://github.com/trangdata/Phase2.1NeuroRPackage","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/trangdata%2FPhase2.1NeuroRPackage","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/trangdata%2FPhase2.1NeuroRPackage/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/trangdata%2FPhase2.1NeuroRPackage/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/trangdata%2FPhase2.1NeuroRPackage/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/trangdata","download_url":"https://codeload.github.com/trangdata/Phase2.1NeuroRPackage/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":241511549,"owners_count":19974432,"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":"2024-11-13T15:33:23.752Z","updated_at":"2026-04-17T18:01:55.567Z","avatar_url":"https://github.com/trangdata.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"---\ntitle: \"Analysis of COVID-19 patients with Neurological Conditions\"\noutput: rmarkdown::github_document\n---\n\n[![github-action-status](https://img.shields.io/github/workflow/status/trang1618/treeheatr/R-CMD-check?logo=github)](https://github.com/trang1618/treeheatr/actions)\n\n\n```{r, include = FALSE}\nknitr::opts_chunk$set(\n  fig.path = \"man/figures/\"\n)\n```\n\n## Install \n\nYou can install the development version of **Phase2.1NeuroRPackage** from GitHub with remotes:\n\n```{r, eval=FALSE}\n# install.packages('remotes') # uncomment to install devtools\nremotes::install_github('covidclinical/Phase2.1NeuroRPackage')\n```\n\n## How to run\n\nThe main function `runAnalysis()` has 6 arguments.\nPlease read the documentation with `?runAnalysis` for a detailed explanation.\n\n```{r}\nlibrary(Phase2.1NeuroRPackage)\n\nrunAnalysis(mysite = 'penn', mask_thres = 10, blur_abs = 0, include_race = TRUE,\n            out_dir = 'output', data_dir = '../thrombotic-penn/data')\n```\n\nSee your site obfuscation parameters (`mask_thres` and `blur_abs`) [here](https://docs.google.com/spreadsheets/d/1Xl9juDBXt86P3xQtsoTaBl2zPl1BIiAG9DI3Rotyqp8/edit#gid=212461777).\nIf your site does not have race information, set `include_race = FALSE`.\n\nPlease submit the results to the central repository:\n\n```{r, eval=FALSE}\nFourCePhase2.1AKI::submitAnalysis()\n```\n\nIf you run into any problem adapting this code to your data, let us (@meghutch and @trang1618) know via Slack or [submit an issue](https://github.com/covidclinical/Phase2.1NeuroRPackage/issues/new).\n\nThank you very much for your support!\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ftrangdata%2Fphase2.1neurorpackage","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Ftrangdata%2Fphase2.1neurorpackage","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ftrangdata%2Fphase2.1neurorpackage/lists"}