{"id":19629344,"url":"https://github.com/drisso/awst","last_synced_at":"2025-09-07T11:31:13.885Z","repository":{"id":89937994,"uuid":"187996404","full_name":"drisso/awst","owner":"drisso","description":"Asymmetric Winsorization per Sample Transformation","archived":false,"fork":false,"pushed_at":"2024-01-12T13:48:04.000Z","size":57,"stargazers_count":3,"open_issues_count":0,"forks_count":0,"subscribers_count":3,"default_branch":"master","last_synced_at":"2024-12-13T23:36:24.133Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"","language":"R","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/drisso.png","metadata":{"files":{"readme":"README.md","changelog":"NEWS.md","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":"2019-05-22T08:30:46.000Z","updated_at":"2024-01-12T13:38:05.000Z","dependencies_parsed_at":"2024-11-11T11:58:40.262Z","dependency_job_id":"8f42b0a0-dd4f-48ee-b6c6-b130e9f0d67c","html_url":"https://github.com/drisso/awst","commit_stats":{"total_commits":41,"total_committers":2,"mean_commits":20.5,"dds":0.04878048780487809,"last_synced_commit":"9dc66bbb37b31dd2730d00339721ee7ee5cba10f"},"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/drisso%2Fawst","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/drisso%2Fawst/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/drisso%2Fawst/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/drisso%2Fawst/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/drisso","download_url":"https://codeload.github.com/drisso/awst/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":231949229,"owners_count":18450463,"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":"2024-11-11T11:58:36.970Z","updated_at":"2025-01-02T14:15:02.950Z","avatar_url":"https://github.com/drisso.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# awst\n\n\u003c!-- badges: start --\u003e\n[![R-CMD-check-bioc](https://github.com/drisso/awst/workflows/R-CMD-check-bioc/badge.svg)](https://github.com/drisso/awst/actions)\n\u003c!-- badges: end --\u003e\n\nAsymmetric Winsorization per Sample Transformation\n\nThis package implements the AWST method presented in [Risso and Pagnotta (2020)](https://doi.org/10.1101/2020.06.04.134916).\n\n## Installation\n\nIn virtually all cases, the package should be installed from Bioconductor, using the following command:\n\n```{r}\nif (!requireNamespace(\"BiocManager\", quietly = TRUE))\n    install.packages(\"BiocManager\")\nBiocManager::install(\"awst\")\n```\n\nIn the rare case that you need the development version from Github, you can install it with:\n\n```{r}\nBiocManager::install(\"drisso/awst\")\n```\n\n\n## Usage\n\nThe AWST transformation can be applied either directly on raw counts, or (recommended) to normalized counts. The input should be either a matrix with genes in rows and samples in columns or a SummarizedExperiment object.\n\n```{r}\nlibrary(awst)\nxt \u003c- awst(x)\n```\n\nFor detailed examples and use cases see the vignette and https://github.com/drisso/awst_analysis.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdrisso%2Fawst","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fdrisso%2Fawst","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdrisso%2Fawst/lists"}