{"id":25163076,"url":"https://github.com/dsrobertson/onlinefdr","last_synced_at":"2025-04-30T15:21:40.639Z","repository":{"id":32329547,"uuid":"129420795","full_name":"dsrobertson/onlineFDR","owner":"dsrobertson","description":"Clone of the Bioconductor repository for the onlineFDR package. See https://bioconductor.org/packages/devel/bioc/html/onlineFDR.html for the official development version, and https://dsrobertson.github.io/onlineFDR/ for easy access to documentation.","archived":false,"fork":false,"pushed_at":"2023-04-12T10:38:35.000Z","size":12265,"stargazers_count":14,"open_issues_count":0,"forks_count":4,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-04-26T08:39:09.469Z","etag":null,"topics":["error-rate-control","fdr","fwer","hypothesis-testing"],"latest_commit_sha":null,"homepage":"https://dsrobertson.github.io/onlineFDR/","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/dsrobertson.png","metadata":{"files":{"readme":"README.Rmd","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":"2018-04-13T15:27:02.000Z","updated_at":"2024-05-21T06:42:33.000Z","dependencies_parsed_at":"2022-08-07T17:15:51.050Z","dependency_job_id":"9a88da3e-c059-4fc5-bff8-fa79f88b7b74","html_url":"https://github.com/dsrobertson/onlineFDR","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/dsrobertson%2FonlineFDR","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dsrobertson%2FonlineFDR/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dsrobertson%2FonlineFDR/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dsrobertson%2FonlineFDR/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/dsrobertson","download_url":"https://codeload.github.com/dsrobertson/onlineFDR/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":251729753,"owners_count":21634282,"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":["error-rate-control","fdr","fwer","hypothesis-testing"],"created_at":"2025-02-09T03:35:22.557Z","updated_at":"2025-04-30T15:21:40.576Z","avatar_url":"https://github.com/dsrobertson.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"---\noutput:\n  md_document:\n    variant: gfm\n  github_document: default\n---\n\n```{r, include = FALSE}\nknitr::opts_chunk$set(\n  collapse = TRUE,\n  comment = \"#\u003e\",\n  fig.path = \"man/figures/README-\",\n  out.width = \"100%\"\n)\n```\n\u003c!-- badges: start --\u003e\n[![R-CMD-check](https://github.com/dsrobertson/onlineFDR/workflows/R-CMD-check/badge.svg)](https://github.com/dsrobertson/onlineFDR/actions)\n[![codecov](https://codecov.io/gh/dsrobertson/onlineFDR/branch/master/graph/badge.svg)](https://codecov.io/gh/dsrobertson/onlineFDR)\n\u003c!-- badges: end --\u003e\n\n\n# onlineFDR \u003cimg src=\"man/figures/logo.png\" align=\"right\" /\u003e\n\n`onlineFDR` allows users to control the false discovery rate (FDR) or\nfamilywise error rate (FWER) for online hypothesis testing, where hypotheses\narrive in a stream. In this framework, a null hypothesis is\nrejected based on the evidence against it and on the previous rejection decisions.\n\n\n## Installation\n\nTo install the latest (development) version of the onlineFDR package from\nBioconductor, please run the following code:\n\n```{r, message=FALSE, warning=FALSE, results=FALSE}\nif (!requireNamespace(\"BiocManager\", quietly = TRUE))\n    install.packages(\"BiocManager\")\n\n# The following initializes usage of Bioc\nBiocManager::install()\n\nBiocManager::install(\"onlineFDR\")\n```\n\nAlternatively, you can install the package directly from GitHub:\n\n```{r, message=FALSE, warning=FALSE, results=FALSE}\n# install.packages(\"devtools\") # If devtools not installed\n\ndevtools::install_github(\"dsrobertson/onlineFDR\")\n```\n\n\n## Documentation\n\nDocumentation is hosted at https://dsrobertson.github.io/onlineFDR/\n\nTo view the vignette for the version of this package installed in your system,\nstart R and enter:\n\n```{r, message=FALSE, warning=FALSE, results=FALSE}\nbrowseVignettes(\"onlineFDR\")\n```\n\n## References\nAharoni, E. and Rosset, S. (2014). Generalized alpha-investing: definitions, \noptimality results and applications to public databases.\n*Journal of the Royal Statistical Society (Series B)*, 76(4):771--794.\n\nFoster, D. and Stine R. (2008). alpha-investing: a procedure for \nsequential control of expected false discoveries.\n*Journal of the Royal Statistical Society (Series B)*, 29(4):429-444.\n\nJavanmard, A., and Montanari, A. (2015). On Online Control of False\nDiscovery Rate. *arXiv preprint*, https://arxiv.org/abs/1502.06197.\n\nJavanmard, A., and Montanari, A. (2018). Online Rules for Control of False\nDiscovery Rate and False Discovery Exceedance. *Annals of Statistics*,\n46(2):526-554.\n\nRamdas, A., Yang, F., Wainwright M.J. and Jordan, M.I. (2017). Online control\nof the false discovery rate with decaying memory. \n*Advances in Neural Information Processing Systems 30*, 5650-5659.\n\nRamdas, A., Zrnic, T., Wainwright M.J. and Jordan, M.I. (2018). SAFFRON: an\nadaptive algorithm for online control of the false discovery rate. \n*Proceedings of the 35th International Conference in Machine Learning*,\n80:4286-4294.\n\nRobertson, D.S. and Wason, J.M.S. (2018). Online control of the false discovery\nrate in biomedical research. *arXiv preprint*, https://arxiv.org/abs/1809.07292.\n\nRobertson, D.S., Wason, J.M.S. and Ramdas, A. (2022). Online multiple\nhypothesis testing for reproducible research. *arXiv preprint*, https://arxiv.org/abs/2208.11418.\n\nRobertson, D.S., Wildenhain, J., Javanmard, A. and Karp, N.A. (2019). onlineFDR:\nan R package to control the false discovery rate for growing data repositories.\n*Bioinformatics*, 35:4196-4199,  https://doi.org/10.1093/bioinformatics/btz191.\n\nTian, J. and Ramdas, A. (2019). ADDIS: an adaptive discarding algorithm for \nonline FDR control with conservative nulls.\n*Advances in Neural Information Processing Systems*, 9388-9396.\n\nTian, J. and Ramdas, A. (2021). Online control of the familywise error rate.\n*Statistical Methods for Medical Research*, 30(4):976–993.\n\nZrnic, T., Jiang D., Ramdas A. and Jordan M. (2020). The Power of\nBatching in Multiple Hypothesis Testing.\n*International Conference on Artificial Intelligence and Statistics*,\nPMLR, 108:3806-3815.\n\nZrnic, T., Ramdas, A. and Jordan, M.I. (2021). Asynchronous Online Testing of\nMultiple Hypotheses. *Journal of Machine Learning Research*, 22:1-33.\n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdsrobertson%2Fonlinefdr","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fdsrobertson%2Fonlinefdr","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdsrobertson%2Fonlinefdr/lists"}